DB code: D00855
| RLCP classification | 1.13.30000.10 : Hydrolysis | |
|---|---|---|
| CATH domain | 2.40.10.10 : Thrombin, subunit H | Catalytic domain |
| 2.40.10.10 : Thrombin, subunit H | Catalytic domain | |
| E.C. | 3.4.21.79 | |
| CSA | ||
| M-CSA | ||
| MACiE | ||
| CATH domain | Related DB codes (homologues) |
|---|---|
| 2.40.10.10 : Thrombin, subunit H | M00139 D00214 M00167 D00426 M00133 D00428 D00429 D00430 D00431 D00432 D00433 D00434 D00435 M00227 M00209 D00194 D00197 D00211 D00212 D00216 M00212 D00224 D00497 M00217 M00216 D00528 D00848 D00850 D00851 D00852 M00152 M00155 M00157 M00181 M00315 M00316 M00317 M00348 M00349 T00074 T00410 T00411 |
| Uniprot Enzyme Name | UniprotKB | Protein name | Synonyms | RefSeq | MEROPS | Pfam |
|---|---|---|---|---|---|
| P18291 |
Granzyme B
|
EC
3.4.21.79
Fragmentin Natural killer cell protease 1 RNKP-1 |
NP_612526.2
(Protein)
NM_138517.3 (DNA/RNA sequence) XP_002728303.2 (Protein) XM_002728257.2 (DNA/RNA sequence) |
S01.091
(Serine)
|
PF00089
(Trypsin)
[Graphical View] |
| P10144 |
Granzyme B
|
EC
3.4.21.79
C11 CTLA-1 Cathepsin G-like 1 CTSGL1 Cytotoxic T-lymphocyte proteinase 2 Lymphocyte protease Fragmentin-2 Granzyme-2 Human lymphocyte protein HLP SECT T-cell serine protease 1-3E |
NP_004122.2
(Protein)
NM_004131.4 (DNA/RNA sequence) |
S01.010
(Serine)
|
PF00089
(Trypsin)
[Graphical View] |
| KEGG enzyme name |
|---|
|
Granzyme B
CTLA1 CCPII Cytotoxic cell proteinase-1 Granzyme G Granzyme H CCP1 proteinase |
| UniprotKB: Accession Number | Entry name | Activity | Subunit | Subcellular location | Cofactor |
|---|---|---|---|---|---|
| P18291 | NKP1_RAT | Preferential cleavage: -Asp-|-Xaa- >> -Asn-|-Xaa- > -Met-|-Xaa-, -Ser-|-Xaa-. | |||
| P10144 | GRAB_HUMAN | Preferential cleavage: -Asp-|-Xaa- >> -Asn-|-Xaa- > -Met-|-Xaa-, -Ser-|-Xaa-. | Cytoplasmic granule. Cytoplasmic granules of cytolytic T-lymphocytes and natural killer cells. |
| KEGG Pathways | Map code | Pathways | E.C. |
|---|
| Compound table | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Substrates | Products | Intermediates | ||||||||||
| KEGG-id | C00017 | C00001 | C00017 | C00012 | I00087 | I00085 | I00086 | |||||
| E.C. | ||||||||||||
| Compound | Protein | H2O | Protein | Peptide | Peptidyl-Ser-tetrahedral-intermediate (with previous peptide) | Acyl-enzyme(Peptidyl-Ser-acyl group) | Peptidyl-Ser-tetrahedral-intermediate | |||||
| Type | peptide/protein | H2O | peptide/protein | peptide/protein | ||||||||
| ChEBI |
15377 15377 |
|||||||||||
| PubChem |
22247451 962 22247451 962 |
|||||||||||
| 1fi8A01 |
|
|
|
|
|
Unbound | Unbound | Analogue:PRO_83-ASP_84(chain C) | Unbound | Unbound | Unbound | |
| 1fi8B01 |
|
|
|
|
|
Unbound | Unbound | Analogue:PRO_83-ASP_84(chain E) | Unbound | Unbound | Unbound | |
| 1fq3A01 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| 1fq3B01 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| 1iauA01 |
|
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|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Transition-state-analogue:ACE-ILE-GLU-PRO-ASA | |
| 1fi8A02 |
|
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|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| 1fi8B02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| 1fq3A02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| 1fq3B02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| 1iauA02 |
|
|
|
|
|
Unbound | Unbound | Unbound | Unbound | Unbound | Unbound | |
| Reference for Active-site residues | ||
|---|---|---|
| resource | references | E.C. |
| Literature [3], [5] & Swiss-prot;P10144, P18291 | ||
| Active-site residues | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| PDB | Catalytic residues | Cofactor-binding residues | Modified residues | Main-chain involved in catalysis | Comment | |||||
| 1fi8A01 |
|
|
|
|
|
SER 195 | GLY 193;SER 195 | |||
| 1fi8B01 |
|
|
|
|
|
SER 195 | GLY 193;SER 195 | |||
| 1fq3A01 |
|
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|
|
|
SER 195 | GLY 193;SER 195 | |||
| 1fq3B01 |
|
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|
|
|
SER 195 | GLY 193;SER 195 | |||
| 1iauA01 |
|
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|
|
|
SER 195 | GLY 193;SER 195 | |||
| 1fi8A02 |
|
|
|
|
|
HIS 57;ASP 102 | ||||
| 1fi8B02 |
|
|
|
|
|
HIS 57;ASP 102 | ||||
| 1fq3A02 |
|
|
|
|
|
HIS 57;ASP 102 | ||||
| 1fq3B02 |
|
|
|
|
|
HIS 57;ASP 102 | ||||
| 1iauA02 |
|
|
|
|
|
HIS 57;ASP 102 | ||||
| References for Catalytic Mechanism | ||
|---|---|---|
| References | Sections | No. of steps in catalysis |
|
[6]
|
Figure 5 | |
| References | |
|---|---|
| [1] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9218414 |
| Journal | J Biol Chem |
| Year | 1997 |
| Volume | 272 |
| Pages | 17907-11 |
| Authors | Thornberry NA, Rano TA, Peterson EP, Rasper DM, Timkey T, Garcia-Calvo M, Houtzager VM, Nordstrom PA, Roy S, Vaillancourt JP, Chapman KT, Nicholson DW |
| Title |
A combinatorial approach defines specificities of members of the caspase family and granzyme B. |
| Related PDB | |
| Related UniProtKB | |
| [2] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 9765264 |
| Journal | J Biol Chem |
| Year | 1998 |
| Volume | 273 |
| Pages | 27364-73 |
| Authors | Harris JL, Peterson EP, Hudig D, Thornberry NA, Craik CS |
| Title | Definition and redesign of the extended substrate specificity of granzyme B. |
| Related PDB | |
| Related UniProtKB | |
| [3] | |
| Resource | |
| Comments | X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF 21-247. |
| Medline ID | |
| PubMed ID | 11209755 |
| Journal | Biol Chem |
| Year | 2000 |
| Volume | 381 |
| Pages | 1203-14 |
| Authors | Estebanez-Perpina E, Fuentes-Prior P, Belorgey D, Braun M, Kiefersauer R, Maskos K, Huber R, Rubin H, Bode W |
| Title |
Crystal structure of the caspase activator human granzyme B, |
| Related PDB | 1fq3 |
| Related UniProtKB | P10144 |
| [4] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 10966646 |
| Journal | Nat Struct Biol |
| Year | 2000 |
| Volume | 7 |
| Pages | 762-5 |
| Authors | Waugh SM, Harris JL, Fletterick R, Craik CS |
| Title | The structure of the pro-apoptotic protease granzyme B reveals the molecular determinants of its specificity. |
| Related PDB | 1fi8 |
| Related UniProtKB | P18291 |
| [5] | |
| Resource | |
| Comments | X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) OF 21-247. |
| Medline ID | |
| PubMed ID | 11325591 |
| Journal | Chem Biol |
| Year | 2001 |
| Volume | 8 |
| Pages | 357-68 |
| Authors | Rotonda J, Garcia-Calvo M, Bull HG, Geissler WM, McKeever BM, Willoughby CA, Thornberry NA, Becker JW |
| Title |
The three-dimensional structure of human granzyme B compared to caspase-3, |
| Related PDB | 1iau |
| Related UniProtKB | P10144 |
| [6] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 12475199 |
| Journal | Chem Rev |
| Year | 2002 |
| Volume | 102 |
| Pages | 4501-24 |
| Authors | Hedstrom L |
| Title | Serine protease mechanism and specificity. |
| Related PDB | |
| Related UniProtKB | |
| [7] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 17975553 |
| Journal | Cell Death Differ |
| Year | 2008 |
| Volume | 15 |
| Pages | 251-62 |
| Authors | Cullen SP, Martin SJ |
| Title | Mechanisms of granule-dependent killing. |
| Related PDB | |
| Related UniProtKB | |
| [8] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 18836177 |
| Journal | Mol Cell Proteomics |
| Year | 2009 |
| Volume | 8 |
| Pages | 258-72 |
| Authors | Van Damme P, Maurer-Stroh S, Plasman K, Van Durme J, Colaert N, Timmerman E, De Bock PJ, Goethals M, Rousseau F, Schymkowitz J, Vandekerckhove J, Gevaert K |
| Title | Analysis of protein processing by N-terminal proteomics reveals novel species-specific substrate determinants of granzyme B orthologs. |
| Related PDB | |
| Related UniProtKB | |
| [9] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 20536558 |
| Journal | Immunol Rev |
| Year | 2010 |
| Volume | 235 |
| Pages | 105-16 |
| Authors | Afonina IS, Cullen SP, Martin SJ |
| Title | Cytotoxic and non-cytotoxic roles of the CTL/NK protease granzyme B. |
| Related PDB | |
| Related UniProtKB | |
| [10] | |
| Resource | |
| Comments | |
| Medline ID | |
| PubMed ID | 21042704 |
| Journal | Int J Oncol |
| Year | 2010 |
| Volume | 37 |
| Pages | 1361-78 |
| Authors | Rousalova I, Krepela E |
| Title | Granzyme B-induced apoptosis in cancer cells and its regulation (review). |
| Related PDB | |
| Related UniProtKB | |
| Comments |
|---|
|
This enzyme belongs to peptidase family-S1.
This enzyme seems to activate caspases, Since this enzyme has got the same catalytic site as trypsin, |
| Created | Updated |
|---|---|
| 2011-06-29 | 2012-08-01 |