D00076
type: Enzyme
rlcp: p21
cath: Rossmann fold
cath: Helicase, Ruva Protein; domain 3
ec: https://purl.uniprot.org/enzyme/2.1.1.184
csa: 1qam
uniprot: P13956
uniprot: P21236
kegg enzyme: 23S rRNA (adenine2085-N6)-dimethyltransferase
kegg enzyme: ErmC' methyltransferase
kegg enzyme: ermC methylase
kegg enzyme: ermC 23S rRNA methyltransferase
kegg enzyme: rRNA:m6A methyltransferase ErmC'
kegg enzyme: ErmC'
kegg enzyme: rRNA methyltransferase ErmC'
kegg substrate: S-Adenosyl-L-methionine
kegg substrate: adenine2085 in 23S rRNA
kegg product: S-Adenosyl-L-homocysteine
kegg product: N6-dimethyladenine2085 in 23S rRNA
pdb: 1qamA01
pdb: 1qanA01
pdb: 1qaoA01
pdb: 1qaqA01
pdb: 2ercA01
pdb: 2ercB01
pdb: 1yubA01
pdb: 1qamA02
pdb: 1qanA02
pdb: 1qaoA02
pdb: 1qaqA02
pdb: 2ercA02
pdb: 2ercB02
pdb: 1yubA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1qamA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1qanA01
pdb bound state: Analogue
  compound: S-Adenosyl-L-methionine
  pdb: 1qaqA01
  ligand het code: SFG
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 2ercA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 2ercB01
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1yubA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1qamA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1qanA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1qaoA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1qaqA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 2ercA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 2ercB02
pdb bound state: Unbound
  compound: S-Adenosyl-L-methionine
  pdb: 1yubA02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qamA01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qanA01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qaoA01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qaqA01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 2ercA01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 2ercB01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1yubA01
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qamA02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qanA02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qaoA02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1qaqA02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 2ercA02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 2ercB02
pdb bound state: Unbound
  compound: adenine2085 in 23S rRNA
  pdb: 1yubA02
pdb bound state: Unbound
  compound: S-Adenosyl-L-homocysteine
  pdb: 1qamA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-homocysteine
  pdb: 1qaoA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-homocysteine
  pdb: 1qaqA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-homocysteine
  pdb: 2ercA01
pdb bound state: Unbound
  compound: S-Adenosyl-L-homocysteine
  pdb: 2ercB01
active site residues resources: Crystal structure of the transcription factor sc-mtTFB offers insights into mitochondrial transcription.
active site residues resources: Mutational analysis of basic residues in the N-terminus of the rRNA:m6A methyltransferase ErmC'.
references: Substrate requirements for ErmC' methyltransferase activity.
references: Solution structure of an rRNA methyltransferase (ErmAM) that confers macrolide-lincosamide-streptogramin antibiotic resistance.
references: Crystal structure of ErmC', an rRNA methyltransferase which mediates antibiotic resistance in bacteria.
references: Novel inhibitors of Erm methyltransferases from NMR and parallel synthesis.
references: The 2.2 A structure of the rRNA methyltransferase ErmC' and its complexes with cofactor and cofactor analogs: implications for the reaction mechanism.
references: Crystal structure of the transcription factor sc-mtTFB offers insights into mitochondrial transcription.
references: Identification of essential residues in the Erm(B) rRNA methyltransferase of Clostridium perfringens.
references: http://ezcatdb.cbrc.jp/EzCatDB/reference/D00076#8
references: Mutational analysis defines the roles of conserved amino acid residues in the predicted catalytic pocket of the rRNA:m6A methyltransferase ErmC'.
references: Mutational analysis of basic residues in the N-terminus of the rRNA:m6A methyltransferase ErmC'.
references: Crystal structure of KsgA, a universally conserved rRNA adenine dimethyltransferase in Escherichia coli.
references: Structural and functional characterization of CFE88: evidence that a conserved and essential bacterial protein is a methyltransferase.
comment: According to the literature [9], the catalytic residues of this enzyme is nearly the same as that of Modification methylase TaqI (D00080 in EzCatDB), suggesting that it has a similar mechanism to that.

Rossmann fold
type: Cath
references: http://www.cathdb.info/version/latest/superfamily/3.40.50.150
catalytic domain: index.html

Helicase, Ruva Protein; domain 3
type: Cath
references: http://www.cathdb.info/version/latest/superfamily/1.10.8.100

S-Adenosyl-L-methionine
type: KeggSubstrate
references: KEGG:C00019
compound type: amino acids
compound type: amine group
compound type: nucleoside
compound type: sulfonium ion
references: CHEBI:67040
references: http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi

adenine2085 in 23S rRNA
type: KeggSubstrate
references: KEGG:L00096
compound type: amine group
compound type: nucleic acids

S-Adenosyl-L-homocysteine
type: KeggProduct
references: KEGG:C00021
compound type: amino acids
compound type: amine group
compound type: nucleoside
compound type: sulfide group
references: CHEBI:16680
references: CHEBI:57856
references: http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi

N6-dimethyladenine2085 in 23S rRNA
type: KeggProduct
references: KEGG:L00097
compound type: amine group
compound type: nucleic acids

1qamA01
type: Pdb
references: 1qam
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:1qam
catalytic residue: ASN 101;TYR 104;PHE 163
main chain in catalysis: ILE 102

1qanA01
type: Pdb
references: 1qan
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:1qan
catalytic residue: ASN 101;TYR 104;PHE 163
main chain in catalysis: ILE 102

1qaoA01
type: Pdb
references: 1qao
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:1qao
catalytic residue: ASN 101;TYR 104;PHE 163
main chain in catalysis: ILE 102

1qaqA01
type: Pdb
references: 1qaq
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:1qaq
catalytic residue: ASN 101;TYR 104;PHE 163
main chain in catalysis: ILE 102

2ercA01
type: Pdb
references: 2erc
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:2erc
catalytic residue: ASN 101;TYR 104;PHE 163
main chain in catalysis: ILE 102

2ercB01
type: Pdb
references: 2erc
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:2erc
catalytic residue: ASN 101;TYR 104;PHE 163
main chain in catalysis: ILE 102

1yubA01
type: Pdb
references: 1yub
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: PDB:1yub
catalytic residue: ASN 100;TYR 103;PHE 162
main chain in catalysis: ILE 101
comment: mutant I75T, S100N, H118R

Substrate requirements for ErmC' methyltransferase activity.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/7543473
journal: J Bacteriol
volume: 177
pages: 4327-32
published year: 1995
authors:
  item: Zhong P
  item: Pratt SD
  item: Edalji RP
  item: Walter KA
  item: Holzman TF
  item: Shivakumar AG
  item: Katz L

Solution structure of an rRNA methyltransferase (ErmAM) that confers macrolide-lincosamide-streptogramin antibiotic resistance.
type: BibliographicResource
comment: STRUCTURE BY NMR
medline id: 97331325
references: http://www.ncbi.nlm.nih.gov/pubmed/9187657
journal: Nat Struct Biol
volume: 4
pages: 483-9
published year: 1997
authors:
  item: Yu L
  item: Petros AM
  item: Schnuchel A
  item: Zhong P
  item: Severin JM
  item: Walter K
  item: Holzman TF
  item: Fesik SW
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: P21236

Crystal structure of ErmC', an rRNA methyltransferase which mediates antibiotic resistance in bacteria.
type: BibliographicResource
comment: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF 10-244
medline id: 98254494
references: http://www.ncbi.nlm.nih.gov/pubmed/9585521
journal: Biochemistry
volume: 37
pages: 7103-12
published year: 1998
authors:
  item: Bussiere DE
  item: Muchmore SW
  item: Dealwis CG
  item: Schluckebier G
  item: Nienaber VL
  item: Edalji RP
  item: Walter KA
  item: Ladror US
  item: Holzman TF
  item: Abad-Zapatero C
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: P13956

Novel inhibitors of Erm methyltransferases from NMR and parallel synthesis.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/10508434
journal: J Med Chem
volume: 42
pages: 3852-9
published year: 1999
authors:
  item: Hajduk PJ
  item: Dinges J
  item: Schkeryantz JM
  item: Janowick D
  item: Kaminski M
  item: Tufano M
  item: Augeri DJ
  item: Petros A
  item: Nienaber V
  item: Zhong P
  item: Hammond R
  item: Coen M
  item: Beutel B
  item: Katz L
  item: Fesik SW

The 2.2 A structure of the rRNA methyltransferase ErmC' and its complexes with cofactor and cofactor analogs: implications for the reaction mechanism.
type: BibliographicResource
comment: X-RAY CRYSTALLOGRAPHY (2.2 ANGSTROMS)
medline id: 99296629
references: http://www.ncbi.nlm.nih.gov/pubmed/10366505
journal: J Mol Biol
volume: 289
pages: 277-91
published year: 1999
authors:
  item: Schluckebier G
  item: Zhong P
  item: Stewart KD
  item: Kavanaugh TJ
  item: Abad-Zapatero C
references: http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl
references: P13956

Crystal structure of the transcription factor sc-mtTFB offers insights into mitochondrial transcription.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/11567089
journal: Protein Sci
volume: 10
pages: 1980-8
published year: 2001
authors:
  item: Schubot FD
  item: Chen CJ
  item: Rose JP
  item: Dailey TA
  item: Dailey HA
  item: Wang BC

Identification of essential residues in the Erm(B) rRNA methyltransferase of Clostridium perfringens.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/11959553
journal: Antimicrob Agents Chemother
volume: 46
pages: 1253-61
published year: 2002
authors:
  item: Farrow KA
  item: Lyras D
  item: Polekhina G
  item: Koutsis K
  item: Parker MW
  item: Rood JI

http://ezcatdb.cbrc.jp/EzCatDB/reference/D00076#8
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/11763974
journal: J Mol Microbiol Biotechnol
volume: 4
pages: 93-9
published year: 2002
authors:
  item: Bujnicki JM
  item: Blumenthal RM
  item: Rychlewski L
title: Sequence analysis and structure prediction of 23S rRNA:m1G methyltransferases reveals a conserved core augmented with a putative Zn-binding domain in the N-terminus and family-specific elaborations in the C-terminus.

Mutational analysis defines the roles of conserved amino acid residues in the predicted catalytic pocket of the rRNA:m6A methyltransferase ErmC'.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/12946350
journal: J Mol Biol
volume: 332
pages: 99-109
published year: 2003
authors:
  item: Maravic G
  item: Feder M
  item: Pongor S
  item: Flogel M
  item: Bujnicki JM

Mutational analysis of basic residues in the N-terminus of the rRNA:m6A methyltransferase ErmC'.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/15114858
journal: Folia Microbiol (Praha)
volume: 49
pages: 3-7
published year: 2004
authors:
  item: Maravic G
  item: Bujnicki JM
  item: Flogel M

Crystal structure of KsgA, a universally conserved rRNA adenine dimethyltransferase in Escherichia coli.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/15136037
journal: J Mol Biol
volume: 339
pages: 337-53
published year: 2004
authors:
  item: O'Farrell HC
  item: Scarsdale JN
  item: Rife JP

Structural and functional characterization of CFE88: evidence that a conserved and essential bacterial protein is a methyltransferase.
type: BibliographicResource
references: http://www.ncbi.nlm.nih.gov/pubmed/15929997
journal: Protein Sci
volume: 14
pages: 1472-84
published year: 2005
authors:
  item: Constantine KL
  item: Krystek SR
  item: Healy MD
  item: Doyle ML
  item: Siemers NO
  item: Thanassi J
  item: Yan N
  item: Xie D
  item: Goldfarb V
  item: Yanchunas J
  item: Tao L
  item: Dougherty BA
  item: Farmer BT 2nd

ReferenceForCatalyticMechanism
reference index: 5
reference section: p.287

ReferenceForCatalyticMechanism
reference index: 9
reference section: Fig.4, p.102-106