DB code: T00030
| RLCP classification | 10.22023.100.10525 : Electron transfer | |
|---|---|---|
| 10.23022.100.10580 : Electron transfer | ||
| 10.22140.100.10551 : Electron transfer | ||
| CATH domain | 1.10.645.10 : Cytochrome-c3 Hydrogenase; chain B | Catalytic domain |
| 3.40.50.700 : Rossmann fold | Catalytic domain | |
| 4.10.480.10 : Cytochrome-c3 Hydrogenase; Chain A, domain 2 | Catalytic domain | |
| E.C. | 1.12.2.1 | |
| CSA | 1h2r | |
| M-CSA | 1h2r | |
| MACiE | M0126 | |
| CATH domain | Related DB codes (homologues) |
|---|---|
| 1.10.645.10 : Cytochrome-c3 Hydrogenase; chain B | T00238 |
| 3.40.50.700 : Rossmann fold | T00238 |
| 4.10.480.10 : Cytochrome-c3 Hydrogenase; Chain A, domain 2 | T00238 |
| Uniprot Enzyme Name | UniprotKB | Protein name | Synonyms | RefSeq | Pfam |
|---|---|---|---|---|
| P21852 |
Periplasmic [NiFe] hydrogenase large subunit
|
NiFe hydrogenlyase large chain
EC 1.12.2.1 |
YP_002434695.1
(Protein)
NC_011769.1 (DNA/RNA sequence) |
PF00374
(NiFeSe_Hases)
[Graphical View] |
| P18188 |
Periplasmic [NiFe] hydrogenase large subunit
|
EC
1.12.2.1
NiFe hydrogenlyase large chain |
PF00374
(NiFeSe_Hases)
[Graphical View] |
|
| P12944 |
Periplasmic [NiFe] hydrogenase large subunit
|
EC
1.12.2.1
NiFe hydrogenlyase large chain |
PF00374
(NiFeSe_Hases)
[Graphical View] |
|
| P18187 |
Periplasmic [NiFe] hydrogenase small subunit
|
EC
1.12.2.1
NiFe hydrogenlyase small chain |
PF01058
(Oxidored_q6)
PF10518 (TAT_signal) [Graphical View] |
|
| P12943 |
Periplasmic [NiFe] hydrogenase small subunit
|
EC
1.12.2.1
NiFe hydrogenlyase small chain |
PF01058
(Oxidored_q6)
[Graphical View] |
|
| P21853 |
Periplasmic [NiFe] hydrogenase small subunit
|
EC
1.12.2.1
NiFe hydrogenlyase small chain |
YP_002434696.1
(Protein)
NC_011769.1 (DNA/RNA sequence) |
PF01058
(Oxidored_q6)
[Graphical View] |
| KEGG enzyme name |
|---|
|
cytochrome-c3 hydrogenase
H2:ferricytochrome c3 oxidoreductase cytochrome c3 reductase cytochrome hydrogenase hydrogenase [ambiguous] |
| UniprotKB: Accession Number | Entry name | Activity | Subunit | Subcellular location | Cofactor |
|---|---|---|---|---|---|
| P18188 | PHNL_DESFR | 2 H(2) + ferricytochrome c3 = 4 H(+) + ferrocytochrome c3. | Heterodimer of a large and a small subunit. | Periplasm. | Binds 1 nickel ion per subunit. |
| P12944 | PHNL_DESGI | 2 H(2) + ferricytochrome c3 = 4 H(+) + ferrocytochrome c3. | Heterodimer of a large and a small subunit. | Periplasm. | Binds 1 nickel ion per subunit. |
| P21852 | PHNL_DESVM | 2 H(2) + ferricytochrome c3 = 4 H(+) + ferrocytochrome c3. | Heterodimer of a large and a small subunit. | Periplasm. | Nickel. Iron. |
| P18187 | PHNS_DESFR | 2 H(2) + ferricytochrome c3 = 4 H(+) + ferrocytochrome c3. | Heterodimer of a large and a small subunit. | Periplasm. | Binds 2 4Fe-4S clusters. Binds 1 3Fe-4S cluster. |
| P12943 | PHNS_DESGI | 2 H(2) + ferricytochrome c3 = 4 H(+) + ferrocytochrome c3. | Heterodimer of a large and a small subunit. | Periplasm. | Binds 2 4Fe-4S clusters. Binds 1 3Fe-4S cluster. |
| P21853 | PHNS_DESVM | 2 H(2) + ferricytochrome c3 = 4 H(+) + ferrocytochrome c3. | Heterodimer of a large and a small subunit. | Periplasm. | Binds 2 4Fe-4S clusters. Binds 1 3Fe-4S cluster. |
| KEGG Pathways | Map code | Pathways | E.C. |
|---|
| Compound table | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Cofactors | Substrates | Products | Intermediates | |||||||||||
| KEGG-id | L00024 | L00027 | L00028 | C00282 | C02682 | C00080 | C02684 | |||||||
| E.C. |
(peroxide bound)
|
(oxygen atom bound)
|
||||||||||||
| Compound | [4Fe-4S] | [3Fe-4S] | Ni--Fe(CN)2(CO) | H2 | ferricytochrome c3 | H+ | ferrocytochrome c3 | Transition-state | Transition-state | |||||
| Type | heavy metal,sulfide group | heavy metal,sulfide group | heavy metal,others | others | aromatic ring (with nitrogen atoms),carbohydrate,heavy metal,peptide/protein,sulfide group | others | aromatic ring (with nitrogen atoms),carbohydrate,heavy metal,peptide/protein,sulfide group | |||||||
| ChEBI |
33725 33725 |
47402 47402 |
18276 18276 |
15378 15378 |
||||||||||
| PubChem |
58838673 783 58838673 783 |
1038 1038 |
||||||||||||
| 1frfL |
|
|
|
|
|
Unbound | Unbound | Analogue:_NI-Fe | Unbound | Unbound | Unbound | |||
| 1yqwQ |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:PER (Ni-SU status) | ||
| 1yqwR |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:PER (Ni-SU status) | ||
| 1yqwS |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:PER (Ni-SU status) | ||
| 1yrqH |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | |||
| 1yrqI |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | |||
| 1yrqJ |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | |||
| 1yrqK |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | |||
| 1yrqM |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | |||
| 1yrqN |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | |||
| 1frvB |
|
|
|
|
|
Unbound | Unbound | Analogue:_NI-FEL | Unbound | Unbound | Unbound | |||
| 1frvD |
|
|
|
|
|
Unbound | Unbound | Analogue:_NI-FEL | Unbound | Unbound | Unbound | |||
| 1yq9H |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:PER (Ni-A status) | ||
| 1yq9I |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:PER (Ni-A status) | ||
| 2frvB |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:__O (Ni-B state) | ||
| 2frvD |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:__O (Ni-B state) | ||
| 2frvF |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:__O (Ni-B state) | ||
| 2frvH |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:__O (Ni-B state) | ||
| 2frvJ |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:__O (Ni-B state) | ||
| 2frvL |
|
|
|
|
|
Unbound | Unbound | Bound:_NI-FCO | Unbound | Unbound | Unbound | Transition-state-bound:__O (Ni-B state) | ||
| 1h2aL |
|
|
|
|
|
Unbound | Unbound | Analogue:NFE | Unbound | Unbound | Unbound | |||
| 1h2rL |
|
|
|
|
|
Unbound | Unbound | Analogue:NFE | Unbound | Unbound | Unbound | |||
| 1ubhL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE-CMO | Unbound | Unbound | Unbound | |||
| 1ubjL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE-CMO | Unbound | Unbound | Unbound | |||
| 1ubkL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE-CMO | Unbound | Unbound | Unbound | |||
| 1ublL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE-CMO | Unbound | Unbound | Unbound | |||
| 1ubmL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE | Unbound | Unbound | Unbound | |||
| 1uboL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE-CMO | Unbound | Unbound | Unbound | |||
| 1ubrL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE-CMO | Unbound | Unbound | Unbound | |||
| 1ubtL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE | Unbound | Unbound | Unbound | |||
| 1ubuL |
|
|
|
|
|
Unbound | Unbound | Analogue:FNE | Unbound | Unbound | Unbound | |||
| 1wuhL |
|
|
|
|
|
Unbound | Unbound | Analogue:NFC | Unbound | Unbound | Unbound | Transition-state-bound:NFC (Ni-A status) | ||
| 1wuiL |
|
|
|
|
|
Unbound | Unbound | Analogue:NFC | Unbound | Unbound | Unbound | Transition-state-bound:NFC (Ni-A status) | ||
| 1wujL |
|
|
|
|
|
Unbound | Unbound | Analogue:NFO | Unbound | Unbound | Unbound | Transition-state-bound:NFO (Ni-B status) | ||
| 1wukL |
|
|
|
|
|
Unbound | Unbound | Analogue:NFO | Unbound | Unbound | Unbound | Transition-state-bound:NFO (oxidized status) | ||
| 1wulL |
|
|
|
|
|
Unbound | Unbound | Bound:NFR | Unbound | Unbound | Unbound | |||
| 1frfS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yqwA01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yqwB01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yqwC01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqA01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqB01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqC01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqD01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqF01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqG01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1frvA01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1frvC01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yq9A01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1yq9B01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 2frvA01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 2frvC01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 2frvE01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 2frvG01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 2frvI01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 2frvS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1h2aS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1h2rS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubhS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubjS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubkS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ublS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubmS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1uboS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubrS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubtS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1ubuS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1wuhS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1wuiS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1wujS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1wukS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1wulS01 |
|
|
|
|
|
Bound:SF4 | Unbound | Unbound | Unbound | Unbound | Unbound | |||
| 1frfS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yqwA02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yqwB02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yqwC02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqA02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqB02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqC02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqD02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqF02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yrqG02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1frvA02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1frvC02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yq9A02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1yq9B02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 2frvA02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 2frvC02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 2frvE02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 2frvG02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 2frvI02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 2frvS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1h2aS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1h2rS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubhS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubjS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubkS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ublS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubmS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1uboS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubrS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubtS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1ubuS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1wuhS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1wuiS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1wujS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1wukS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| 1wulS02 |
|
|
|
|
|
Bound:SF4 | Bound:F3S | Unbound | Unbound | Unbound | Unbound | |||
| Reference for Active-site residues | ||
|---|---|---|
| resource | references | E.C. |
| literature [31], [32], [35], [37], [39], [45], [47] | ||
| Active-site residues | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PDB | Catalytic residues | Cofactor-binding residues | Modified residues | Main-chain involved in catalysis | Comment | |||||
| 1frfL |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yqwQ |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yqwR |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yqwS |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yrqH |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yrqI |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yrqJ |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yrqK |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yrqM |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1yrqN |
|
|
|
|
|
GLU 25;CYS 543 | CYS 75;CYS 546(Fe and Nickel);CYS 72;CYS 543(Nickel) | |||
| 1frvB |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 1frvD |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 1yq9H |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 1yq9I |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 2frvB |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 2frvD |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 2frvF |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 2frvH |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 2frvJ |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 2frvL |
|
|
|
|
|
GLU 18;CYS 530 | CYS 68;CYS 533(Fe and Nickel);CYS 65;CYS 530(Nickel) | |||
| 1h2aL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1h2rL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubhL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubjL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubkL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ublL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubmL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1uboL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubrL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubtL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1ubuL |
|
|
|
|
|
GLU 34;CYS 546 | CYS 84;CYS 549(Fe and Nickel);CYS 81;CYS 546(Nickel) | |||
| 1wuhL |
|
|
|
|
|
GLU 34; | CSO 84;CYS 549(Fe and Nickel);CYS 81;CSO 546(Nickel) | CSO 84;CSO 546 | ||
| 1wuiL |
|
|
|
|
|
GLU 34; | CSO 84;CYS 549(Fe and Nickel);CYS 81;CSO 546(Nickel) | CSO 84;CSO 546 | ||
| 1wujL |
|
|
|
|
|
GLU 34; | CYS 84;CYS 549(Fe and Nickel);CYS 81;CSO 546(Nickel) | ;CSO 546 | ||
| 1wukL |
|
|
|
|
|
GLU 34; | CYS 84;CYS 549(Fe and Nickel);CYS 81;CSO 546(Nickel) | ;CSO 546 | ||
| 1wulL |
|
|
|
|
|
GLU 34; | CYS 84;CYS 549(Fe and Nickel);CYS 81;CSO 546(Nickel) | ;CSO 546 | ||
| 1frfS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yqwA01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yqwB01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yqwC01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yrqA01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yrqB01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yrqC01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yrqD01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yrqF01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1yrqG01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 147(4Fe-4S cluster-1) | |||
| 1frvA01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 1frvC01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 1yq9A01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 1yq9B01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 2frvA01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 2frvC01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 2frvE01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 2frvG01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 2frvI01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 2frvS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 112;CYS 148(4Fe-4S cluster-1) | |||
| 1h2aS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1h2rS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubhS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubjS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubkS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ublS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubmS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1uboS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubrS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubtS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1ubuS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1wuhS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1wuiS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1wujS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1wukS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1wulS01 |
|
|
|
|
|
THR 18 | CYS 17;CYS 20;CYS 114;CYS 150(4Fe-4S cluster-1) | |||
| 1frfS02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yqwA02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yqwB02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yqwC02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yrqA02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yrqB02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yrqC02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yrqD02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yrqF02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1yrqG02 |
|
|
|
|
|
HIS 184;CYS 187;CYS 212;CYS 218(4Fe-4S cluster-2);CYS 227;CYS 245;CYS 248(3Fe-4S cluster) | ||||
| 1frvA02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 1frvC02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 1yq9A02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 1yq9B02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 2frvA02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 2frvC02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 2frvE02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 2frvG02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 2frvI02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 2frvS02 |
|
|
|
|
|
HIS 185;CYS 188;CYS 213;CYS 219(4Fe-4S cluster-2);CYS 228;CYS 246;CYS 249(3Fe-4S cluster) | ||||
| 1h2aS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1h2rS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubhS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubjS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubkS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ublS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubmS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1uboS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubrS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubtS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1ubuS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1wuhS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1wuiS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1wujS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1wukS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| 1wulS02 |
|
|
|
|
|
HIS 188;CYS 191;CYS 216;CYS 222(4Fe-4S cluster-2);CYS 231;CYS 249;CYS 252(3Fe-4S cluster) | ||||
| References for Catalytic Mechanism | ||
|---|---|---|
| References | Sections | No. of steps in catalysis |
|
[7]
|
p.987-988 | |
|
[9]
|
Fig.5, Fig.9, Fig.10, p.14346-14348 | |
|
[10]
|
p.825-828 | |
|
[12]
|
Fig.5, p.582-585 | |
|
[14]
|
Fig.7, p.12995-12996 | |
|
[16]
|
Fig.4, p.7850-7854 | |
|
[17]
|
Fig.2, p.664-665 | |
|
[20]
|
p.1675-1677 | |
|
[21]
|
p.399-400 | |
|
[22]
|
p.11628-11630 | |
|
[23]
|
p.298 | |
|
[24]
|
p.3336-3337 | |
|
[25]
|
Fig.3, p.553-554 | |
|
[31]
|
Scheme 1, Fig.2, p.6202-6203 | |
|
[32]
|
Scheme 1, p.5840 | 2 |
|
[33]
|
Table 1, p.469-472 | |
|
[34]
|
p.457-458 | |
|
[35]
|
p.71-73, p.77-80 | |
|
[36]
|
p.156-157, p.158-159 | |
|
[37]
|
Fig.4, p.4432-4434 | |
|
[38]
|
Fig.7, p.11634-11635 | |
|
[42]
|
Fig.8, p.92 | |
|
[44]
|
Fig.2, p.134-138 | |
|
[45]
|
p.10511-10513 | |
|
[47]
|
Fig.1, p.641-642 | |
|
[48]
|
Fig3., Fig.4, p.872-875 | |
|
[50]
|
Fig.6, p.246-248 | |
|
[51]
|
Fig.3, p.1637-1640 | |
| References | |
|---|---|
| [1] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 6096145 |
| Journal | Eur J Biochem |
| Year | 1984 |
| Volume | 145 |
| Pages | 637-43 |
| Authors | Rieder R, Cammack R, Hall DO |
| Title | Purification and properties of the soluble hydrogenase from Desulfovibrio desulfuricans (strain Norway 4). |
| Related PDB | |
| Related UniProtKB | |
| [2] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 2987196 |
| Journal | J Biochem (Tokyo) |
| Year | 1985 |
| Volume | 97 |
| Pages | 181-7 |
| Authors | Yagi T, Kimura K, Inokuchi H |
| Title | Analysis of the active center of hydrogenase from Desulfovibrio vulgaris Miyazaki by magnetic measurements. |
| Related PDB | |
| Related UniProtKB | |
| [3] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 2154378 |
| Journal | Eur J Biochem |
| Year | 1990 |
| Volume | 187 |
| Pages | 635-43 |
| Authors | Hatchikian CE, Traore AS, Fernandez VM, Cammack R |
| Title | Characterization of the nickel-iron periplasmic hydrogenase from Desulfovibrio fructosovorans. |
| Related PDB | |
| Related UniProtKB | P18187 P18188 |
| [4] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 1316088 |
| Journal | Anal Chem |
| Year | 1992 |
| Volume | 64 |
| Pages | 641-6 |
| Authors | Parpaleix T, Laval JM, Majda M, Bourdillon C |
| Title | Potentiometric and voltammetric investigations of H2/H+ catalysis by periplasmic hydrogenase from Desulfovibrio gigas immobilized at the electrode surface in an amphiphilic bilayer assembly. |
| Related PDB | |
| Related UniProtKB | |
| [5] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 1558764 |
| Journal | FEMS Microbiol Rev |
| Year | 1992 |
| Volume | 8 |
| Pages | 109-35 |
| Authors | Przybyla AE, Robbins J, Menon N, Peck HD Jr |
| Title | Structure-function relationships among the nickel-containing hydrogenases. |
| Related PDB | |
| Related UniProtKB | |
| [6] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8399280 |
| Journal | Biochim Biophys Acta |
| Year | 1993 |
| Volume | 1144 |
| Pages | 302-8 |
| Authors | Franco R, Moura I, LeGall J, Peck HD Jr, Huynh BH, Moura JJ |
| Title |
Characterization of D. |
| Related PDB | |
| Related UniProtKB | |
| [7] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8223656 |
| Journal | Eur J Biochem |
| Year | 1993 |
| Volume | 217 |
| Pages | 981-9 |
| Authors | Moreno C, Franco R, Moura I, Le Gall J, Moura JJ |
| Title | Voltammetric studies of the catalytic electron-transfer process between the Desulfovibrio gigas hydrogenase and small proteins isolated from the same genus. |
| Related PDB | |
| Related UniProtKB | |
| [8] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8501043 |
| Journal | J Bacteriol |
| Year | 1993 |
| Volume | 175 |
| Pages | 3388-93 |
| Authors | Rousset M, Dermoun Z, Wall JD, Belaich JP |
| Title | Analysis of the periplasmic [NiFe] hydrogenase transcription unit from Desulfovibrio fructosovorans. |
| Related PDB | |
| Related UniProtKB | |
| [9] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 7947844 |
| Journal | Biochemistry |
| Year | 1994 |
| Volume | 33 |
| Pages | 14339-50 |
| Authors | Roberts LM, Lindahl PA |
| Title | Analysis of oxidative titrations of Desulfovibrio gigas hydrogenase; implications for the catalytic mechanism. |
| Related PDB | |
| Related UniProtKB | |
| [10] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8174562 |
| Journal | Eur J Biochem |
| Year | 1994 |
| Volume | 221 |
| Pages | 821-9 |
| Authors | Verhagen MF, Wolbert RB, Hagen WR |
| Title |
Cytochrome c553 from Desulfovibrio vulgaris (Hildenborough). |
| Related PDB | |
| Related UniProtKB | |
| [11] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 7718585 |
| Journal | Biochemistry |
| Year | 1995 |
| Volume | 34 |
| Pages | 4781-90 |
| Authors | Guigliarelli B, More C, Fournel A, Asso M, Hatchikian EC, Williams R, Cammack R, Bertrand P |
| Title |
Structural organization of the Ni and (4Fe-4S) centers in the active form of Desulfovibrio gigas hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [12] | |
| Resource | |
| Comments | X-RAY CRYSTALLOGRAPHY (2.85 ANGSTROMS). |
| Medline ID | |
| PubMed ID | 7854413 |
| Journal | Nature |
| Year | 1995 |
| Volume | 373 |
| Pages | 580-7 |
| Authors | Volbeda A, Charon MH, Piras C, Hatchikian EC, Frey M, Fontecilla-Camps JC |
| Title | Crystal structure of the nickel-iron hydrogenase from Desulfovibrio gigas. |
| Related PDB | 1frv |
| Related UniProtKB | P12943 P12944 |
| [13] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8973216 |
| Journal | Biochemistry |
| Year | 1996 |
| Volume | 35 |
| Pages | 16399-406 |
| Authors | Dole F, Medina M, More C, Cammack R, Bertrand P, Guigliarelli B |
| Title | Spin-spin interactions between the Ni site and the [4Fe-4S] centers as a probe of light-induced structural changes in active Desulfovibrio gigas hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [14] | |
| Resource | |
| Comments | X-ray crystallography |
| Medline ID | |
| PubMed ID | |
| Journal | J Am Chem Soc |
| Year | 1996 |
| Volume | 118 |
| Pages | 12989-96 |
| Authors | Volbeda A, Garcin E, Piras C, de Lacey A L, Fernandez VM, Hatchikian EC, Frey M, Fontecilla-Camps JC |
| Title | Structure of the [NiFe] Hydrogenase Active Site: Evidence for Biologically Uncommon Fe Ligands. |
| Related PDB | 2frv |
| Related UniProtKB | |
| [15] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8605619 |
| Journal | Nat Struct Biol |
| Year | 1996 |
| Volume | 3 |
| Pages | 213-7 |
| Authors | Collman JP |
| Title | Coupling H2 to electron transfer. |
| Related PDB | |
| Related UniProtKB | |
| [16] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9201928 |
| Journal | Biochemistry |
| Year | 1997 |
| Volume | 36 |
| Pages | 7847-54 |
| Authors | Dole F, Fournel A, Magro V, Hatchikian EC, Bertrand P, Guigliarelli B |
| Title |
Nature and electronic structure of the Ni-X dinuclear center of Desulfovibrio gigas hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [17] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9479448 |
| Journal | Biochimie |
| Year | 1997 |
| Volume | 79 |
| Pages | 661-6 |
| Authors | Fontecilla-Camps JC, Frey M, Garcin E, Hatchikian C, Montet Y, Piras C, Vernede X, Volbeda A |
| Title |
Hydrogenase: a hydrogen-metabolizing enzyme. |
| Related PDB | |
| Related UniProtKB | |
| [18] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9228943 |
| Journal | Nat Struct Biol |
| Year | 1997 |
| Volume | 4 |
| Pages | 523-6 |
| Authors | Montet Y, Amara P, Volbeda A, Vernede X, Hatchikian EC, Field MJ, Frey M, Fontecilla-Camps JC |
| Title | Gas access to the active site of Ni-Fe hydrogenases probed by X-ray crystallography and molecular dynamics. |
| Related PDB | |
| Related UniProtKB | |
| [19] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 8990114 |
| Journal | Nature |
| Year | 1997 |
| Volume | 385 |
| Pages | 126 |
| Authors | Happe RP, Roseboom W, Pierik AJ, Albracht SP, Bagley KA |
| Title | Biological activation of hydrogen. |
| Related PDB | |
| Related UniProtKB | |
| [20] | |
| Resource | |
| Comments | X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF 19-552. |
| Medline ID | |
| PubMed ID | 9438867 |
| Journal | Structure |
| Year | 1997 |
| Volume | 5 |
| Pages | 1671-80 |
| Authors | Higuchi Y, Yagi T, Yasuoka N |
| Title | Unusual ligand structure in Ni-Fe active center and an additional Mg site in hydrogenase revealed by high resolution X-ray structure analysis. |
| Related PDB | 1h2a |
| Related UniProtKB | P21852 P21853 |
| [21] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9765886 |
| Journal | Biochem Soc Trans |
| Year | 1998 |
| Volume | 26 |
| Pages | 396-401 |
| Authors | Garcin E, Montet Y, Volbeda A, Hatchikian C, Frey M, Fontecilla-Camps JC |
| Title | Structural bases for the catalytic mechanism of [NiFe] hydrogenases. |
| Related PDB | |
| Related UniProtKB | |
| [22] | |
| Resource | |
| Comments | X-ray Diffraction |
| Medline ID | |
| PubMed ID | 9751716 |
| Journal | Proc Natl Acad Sci U S A |
| Year | 1998 |
| Volume | 95 |
| Pages | 11625-30 |
| Authors | Rousset M, Montet Y, Guigliarelli B, Forget N, Asso M, Bertrand P, Fontecilla-Camps JC, Hatchikian EC |
| Title | [3Fe-4S] to [4Fe-4S] cluster conversion in Desulfovibrio fructosovorans [NiFe] hydrogenase by site-directed mutagenesis. |
| Related PDB | 1frf |
| Related UniProtKB | |
| [23] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 10049702 |
| Journal | Biochem Biophys Res Commun |
| Year | 1999 |
| Volume | 255 |
| Pages | 295-9 |
| Authors | Higuchi Y, Yagi T |
| Title | Liberation of hydrogen sulfide during the catalytic action of Desulfovibrio hydrogenase under the atmosphere of hydrogen. |
| Related PDB | |
| Related UniProtKB | |
| [24] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9920874 |
| Journal | J Biol Chem |
| Year | 1999 |
| Volume | 274 |
| Pages | 3331-7 |
| Authors | Pierik AJ, Roseboom W, Happe RP, Bagley KA, Albracht SP |
| Title |
Carbon monoxide and cyanide as intrinsic ligands to iron in the active site of [NiFe]-hydrogenases. |
| Related PDB | |
| Related UniProtKB | |
| [25] | |
| Resource | |
| Comments | X-RAY CRYSTALLOGRAPHY (1.4 ANGSTROMS). |
| Medline ID | |
| PubMed ID | 10378274 |
| Journal | Structure Fold Des |
| Year | 1999 |
| Volume | 7 |
| Pages | 549-56 |
| Authors | Higuchi Y, Ogata H, Miki K, Yasuoka N, Yagi T |
| Title |
Removal of the bridging ligand atom at the Ni-Fe active site of [NiFe] hydrogenase upon reduction with H2, |
| Related PDB | 1h2r |
| Related UniProtKB | P21852 P21853 |
| [26] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11128995 |
| Journal | J Biol Inorg Chem |
| Year | 2000 |
| Volume | 5 |
| Pages | 682-91 |
| Authors | Bertrand P, Dole F, Asso M, Guigliarelli B |
| Title | Is there a rate-limiting step in the catalytic cycle of Ni-Fe hydrogenases? |
| Related PDB | |
| Related UniProtKB | |
| [27] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 10766434 |
| Journal | J Biol Inorg Chem |
| Year | 2000 |
| Volume | 5 |
| Pages | 36-44 |
| Authors | Trofanchuk O, Stein M, Gessner C, Lendzian F, Higuchi Y, Lubitz W |
| Title | Single crystal EPR studies of the oxidized active site of [NiFe] hydrogenase from Desulfovibrio vulgaris Miyazaki F. |
| Related PDB | |
| Related UniProtKB | |
| [28] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11001090 |
| Journal | J Inorg Biochem |
| Year | 2000 |
| Volume | 80 |
| Pages | 205-11 |
| Authors | Higuchi Y, Toujou F, Tsukamoto K, Yagi T |
| Title | The presence of a SO molecule in [NiFe] hydrogenase from Desulfovibrio vulgaris Miyazaki as detected by mass spectrometry. |
| Related PDB | |
| Related UniProtKB | |
| [29] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11170458 |
| Journal | Biochemistry |
| Year | 2001 |
| Volume | 40 |
| Pages | 1317-24 |
| Authors | Fritz G, Griesshaber D, Seth O, Kroneck PM |
| Title |
Nonaheme cytochrome c, |
| Related PDB | |
| Related UniProtKB | |
| [30] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11195380 |
| Journal | Inorg Chem |
| Year | 2001 |
| Volume | 40 |
| Pages | 18-24 |
| Authors | Li S, Hall MB |
| Title |
Modeling the active sites of metalloenzymes. |
| Related PDB | |
| Related UniProtKB | |
| [31] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11703120 |
| Journal | Inorg Chem |
| Year | 2001 |
| Volume | 40 |
| Pages | 6201-3 |
| Authors | Niu S, Hall MB |
| Title |
Modeling the active sites in metalloenzymes 5. |
| Related PDB | |
| Related UniProtKB | |
| [32] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11403633 |
| Journal | J Am Chem Soc |
| Year | 2001 |
| Volume | 123 |
| Pages | 5839-40 |
| Authors | Stein M, van Lenthe E, Baerends EJ, Lubitz W |
| Title |
Relativistic DFT calculations of the paramagnetic intermediates of [NiFe] hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [33] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11372206 |
| Journal | J Biol Inorg Chem |
| Year | 2001 |
| Volume | 6 |
| Pages | 467-73 |
| Authors | Fan HJ, Hall MB |
| Title | Recent theoretical predictions of the active site for the observed forms in the catalytic cycle of Ni-Fe hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [34] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11372204 |
| Journal | J Biol Inorg Chem |
| Year | 2001 |
| Volume | 6 |
| Pages | 453-9 |
| Authors | Maroney MJ, Bryngelson PA |
| Title | Spectroscopic and model studies of the Ni-Fe hydrogenase reaction mechanism. |
| Related PDB | |
| Related UniProtKB | |
| [35] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11191224 |
| Journal | J Biol Inorg Chem |
| Year | 2001 |
| Volume | 6 |
| Pages | 63-81 |
| Authors | Matias PM, Soares CM, Saraiva LM, Coelho R, Morais J, Le Gall J, Carrondo MA |
| Title |
[NiFe] hydrogenase from Desulfovibrio desulfuricans ATCC 27774: gene sequencing, |
| Related PDB | |
| Related UniProtKB | |
| [36] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11921392 |
| Journal | Chembiochem |
| Year | 2002 |
| Volume | 3 |
| Pages | 153-60 |
| Authors | Frey M |
| Title | Hydrogenases: hydrogen-activating enzymes. |
| Related PDB | |
| Related UniProtKB | |
| [37] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 12184759 |
| Journal | Inorg Chem |
| Year | 2002 |
| Volume | 41 |
| Pages | 4424-34 |
| Authors | Stadler C, de Lacey AL, Montet Y, Volbeda A, Fontecilla-Camps JC, Conesa JC, Fernandez VM |
| Title |
Density functional calculations for modeling the active site of nickel-iron hydrogenases. |
| Related PDB | |
| Related UniProtKB | |
| [38] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11782180 |
| Journal | J Am Chem Soc |
| Year | 2002 |
| Volume | 124 |
| Pages | 281-6 |
| Authors | Carepo M, Tierney DL, Brondino CD, Yang TC, Pamplona A, Telser J, Moura I, Moura JJ, Hoffman BM |
| Title | 17O ENDOR detection of a solvent-derived Ni-(OH(x))-Fe bridge that is lost upon activation of the hydrogenase from Desulfovibrio gigas. |
| Related PDB | |
| Related UniProtKB | |
| [39] | |
| Resource | |
| Comments | X-ray Diffraction |
| Medline ID | |
| PubMed ID | 12296727 |
| Journal | J Am Chem Soc |
| Year | 2002 |
| Volume | 124 |
| Pages | 11628-35 |
| Authors | Ogata H, Mizoguchi Y, Mizuno N, Miki K, Adachi S, Yasuoka N, Yagi T, Yamauchi O, Hirota S, Higuchi Y |
| Title | Structural studies of the carbon monoxide complex of [NiFe]hydrogenase from Desulfovibrio vulgaris Miyazaki F: suggestion for the initial activation site for dihydrogen. |
| Related PDB | 1ubh 1ubj 1ubk 1ubl 1ubm 1ubo 1ubr 1ubt |
| Related UniProtKB | |
| [40] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11935356 |
| Journal | J Biol Inorg Chem |
| Year | 2002 |
| Volume | 7 |
| Pages | 318-26 |
| Authors | De Lacey AL, Stadler C, Fernandez VM, Hatchikian EC, Fan HJ, Li S, Hall MB |
| Title | IR spectroelectrochemical study of the binding of carbon monoxide to the active site of Desulfovibrio fructosovorans Ni-Fe hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [41] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 11862554 |
| Journal | J Biol Inorg Chem |
| Year | 2002 |
| Volume | 7 |
| Pages | 177-94 |
| Authors | Muller A, Tscherny I, Kappl R, Hatchikian C, Huttermann J, Cammack R |
| Title | Hydrogenases in the "active" state: determination of g-matrix axes and electron spin distribution at the active site by 1H ENDOR spectroscopy. |
| Related PDB | |
| Related UniProtKB | |
| [42] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 12515509 |
| Journal | J Am Chem Soc |
| Year | 2003 |
| Volume | 125 |
| Pages | |
| Authors | Foerster S, Stein M, Brecht M, Ogata H, Higuchi Y, Lubitz W |
| Title | Single crystal EPR studies of the reduced active site of [NiFe] hydrogenase from Desulfovibrio vulgaris Miyazaki F. |
| Related PDB | |
| Related UniProtKB | |
| [43] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 12459907 |
| Journal | J Biol Inorg Chem |
| Year | 2003 |
| Volume | 8 |
| Pages | 129-34 |
| Authors | DeLacey AL, Fernandez VM, Rousset M, Cavazza C, Hatchikian EC |
| Title | Spectroscopic and kinetic characterization of active site mutants of Desulfovibrio fructosovoransNi-Fe hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [44] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15062773 |
| Journal | Curr Opin Chem Biol |
| Year | 2004 |
| Volume | 8 |
| Pages | 133-40 |
| Authors | Armstrong FA |
| Title | Hydrogenases: active site puzzles and progress. |
| Related PDB | |
| Related UniProtKB | |
| [45] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 14688251 |
| Journal | J Biol Chem |
| Year | 2004 |
| Volume | 279 |
| Pages | 10508-13 |
| Authors | Dementin S, Burlat B, De Lacey AL, Pardo A, Adryanczyk-Perrier G, Guigliarelli B, Fernandez VM, Rousset M |
| Title | A glutamate is the essential proton transfer gate during the catalytic cycle of the [NiFe] hydrogenase. |
| Related PDB | |
| Related UniProtKB | |
| [46] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15365900 |
| Journal | J Biol Inorg Chem |
| Year | 2004 |
| Volume | 9 |
| Pages | 873-84 |
| Authors | Bruschi M, De Gioia L, Zampella G, Reiher M, Fantucci P, Stein M |
| Title | A theoretical study of spin states in Ni-S4 complexes and models of the [NiFe] hydrogenase active site. |
| Related PDB | |
| Related UniProtKB | |
| [47] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15175937 |
| Journal | J Biol Inorg Chem |
| Year | 2004 |
| Volume | 9 |
| Pages | 636-42 |
| Authors | De Lacey AL, Pardo A, Fernandez VM, Dementin S, Adryanczyk-Perrier G, Hatchikian EC, Rousset M |
| Title | FTIR spectroelectrochemical study of the activation and inactivation processes of [NiFe] hydrogenases: effects of solvent isotope replacement and site-directed mutagenesis. |
| Related PDB | |
| Related UniProtKB | |
| [48] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15134933 |
| Journal | J Inorg Biochem |
| Year | 2004 |
| Volume | 98 |
| Pages | 862-77 |
| Authors | Stein M, Lubitz W |
| Title | Relativistic DFT calculation of the reaction cycle intermediates of [NiFe] hydrogenase: a contribution to understanding the enzymatic mechanism. |
| Related PDB | |
| Related UniProtKB | |
| [49] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15667250 |
| Journal | Biochem Soc Trans |
| Year | 2005 |
| Volume | 33 |
| Pages | 7-11 |
| Authors | van Gastel M, Fichtner C, Neese F, Lubitz W |
| Title | EPR experiments to elucidate the structure of the ready and unready states of the [NiFe] hydrogenase of Desulfovibrio vulgaris Miyazaki F. |
| Related PDB | |
| Related UniProtKB | |
| [50] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 15803334 |
| Journal | J Biol Inorg Chem |
| Year | 2005 |
| Volume | 10 |
| Pages | 239-49 |
| Authors | Volbeda A, Martin L, Cavazza C, Matho M, Faber BW, Roseboom W, Albracht SP, Garcin E, Rousset M, Fontecilla-Camps JC |
| Title | Structural differences between the ready and unready oxidized states of [NiFe] hydrogenases. |
| Related PDB | 1yq9 1yqw 1yrq |
| Related UniProtKB | |
| [51] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 16271886 |
| Journal | Structure |
| Year | 2005 |
| Volume | 13 |
| Pages | 1635-42 |
| Authors | Ogata H, Hirota S, Nakahara A, Komori H, Shibata N, Kato T, Kano K, Higuchi Y |
| Title | Activation process of [NiFe] hydrogenase elucidated by high-resolution X-Ray analyses: conversion of the ready to the unready state. |
| Related PDB | 1wuh 1wui 1wuj 1wuk 1wul |
| Related UniProtKB | |
| Comments |
|---|
|
This enzyme catalyzes the following reactions:
(A) Electron transfer from heme iron of cytochrome c3 to [4Fe-4S] cluster-2 located on the surface of small subunit: (A1) His184 (1frf) bound to Fe4-S4, (B) Electron transfer from [4Fe-4S] cluster-2 to [3Fe-4S] cluster: (B1) Indirect transfer from [4Fe-4S] cluster-2 to [3Fe-4S] cluster through Cys218 (bound to [4Fe-4S] cluster-2) and Cys245 (bound to [3Fe-4S]) (see [12]). (C) Electron transfer from [3Fe-4S] cluster to [4Fe-4S] cluster-1: (C1) Indirect transfer from [3Fe-4S] cluster to [4Fe-4S] cluster-1 through Cys248 (bound to [3Fe-4S]) and Cys147 (bound to [4Fe-4S] cluster-1) (see [12]). (D) Electron transfer from [4Fe-4S] cluster-1 to the Nickel-Iron cluster (reaction center): (D1) Indirect transfer from [4Fe-4S] cluster-1 to Nickel-Iron cluster through Cys17 (bound to [4Fe-4S] cluster-1) and Cys72 of Large subunit (bound to Nickel-Iron cluster) (see [12]). (E) Hydrogenation at the Nickel-Iron cluster (reaction center): |
| Created | Updated |
|---|---|
| 2005-08-12 | 2009-02-26 |