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Protein

Precorrin-4 C(11)-methyltransferase

Gene

cobM

Organism
Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the methylation of C-11 in precorrin-4 to form precorrin-5.

Catalytic activityi

S-adenosyl-L-methionine + precorrin-4 = S-adenosyl-L-homocysteine + precorrin-5.

Pathwayi: adenosylcobalamin biosynthesis

This protein is involved in step 4 of the subpathway that synthesizes cob(II)yrinate a,c-diamide from precorrin-2 (aerobic route).
Proteins known to be involved in the 10 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. no protein annotated in this organism
  3. no protein annotated in this organism
  4. Precorrin-4 C(11)-methyltransferase (cobM)
  5. no protein annotated in this organism
  6. Precorrin-6A reductase (cobK)
  7. no protein annotated in this organism
  8. no protein annotated in this organism
  9. Hydrogenobyrinate a,c-diamide synthase (cobB)
  10. no protein annotated in this organism
This subpathway is part of the pathway adenosylcobalamin biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes cob(II)yrinate a,c-diamide from precorrin-2 (aerobic route), the pathway adenosylcobalamin biosynthesis and in Cofactor biosynthesis.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

Cobalamin biosynthesis

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

UniPathwayiUPA00148; UER00215.

Names & Taxonomyi

Protein namesi
Recommended name:
Precorrin-4 C(11)-methyltransferase (EC:2.1.1.133)
Alternative name(s):
Precorrin-3 methylase
Gene namesi
Name:cobM
Ordered Locus Names:RCAP_rcc02040
OrganismiRhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003)
Taxonomic identifieri272942 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter
Proteomesi
  • UP000002361 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001503971 – 261Precorrin-4 C(11)-methyltransferaseAdd BLAST261

Interactioni

Protein-protein interaction databases

STRINGi272942.RCAP_rcc02040.

Structurei

Secondary structure

1261
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 7Combined sources5
Beta strandi9 – 11Combined sources3
Helixi13 – 15Combined sources3
Helixi18 – 26Combined sources9
Beta strandi28 – 32Combined sources5
Helixi34 – 36Combined sources3
Helixi39 – 44Combined sources6
Beta strandi50 – 53Combined sources4
Helixi59 – 72Combined sources14
Beta strandi76 – 82Combined sources7
Helixi90 – 99Combined sources10
Beta strandi104 – 107Combined sources4
Helixi112 – 120Combined sources9
Turni127 – 129Combined sources3
Beta strandi133 – 137Combined sources5
Turni140 – 142Combined sources3
Helixi151 – 155Combined sources5
Turni156 – 158Combined sources3
Beta strandi160 – 165Combined sources6
Helixi167 – 169Combined sources3
Helixi170 – 181Combined sources12
Beta strandi186 – 192Combined sources7
Beta strandi199 – 204Combined sources6
Helixi205 – 207Combined sources3
Helixi210 – 212Combined sources3
Beta strandi213 – 216Combined sources4
Beta strandi220 – 225Combined sources6
Helixi226 – 228Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3NDCX-ray2.00A/B1-261[»]
3NEIX-ray2.50A/B1-261[»]
ProteinModelPortaliO68100.
SMRiO68100.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO68100.

Family & Domainsi

Sequence similaritiesi

Belongs to the precorrin methyltransferase family.Curated

Phylogenomic databases

eggNOGiENOG4105CIA. Bacteria.
COG2875. LUCA.
HOGENOMiHOG000290520.
KOiK05936.
OMAiATMAIHL.
OrthoDBiPOG091H023O.

Family and domain databases

CDDicd11641. Precorrin-4_C11-MT. 1 hit.
Gene3Di3.30.950.10. 1 hit.
3.40.1010.10. 1 hit.
InterProiIPR000878. 4pyrrol_Mease.
IPR014777. 4pyrrole_Mease_sub1.
IPR014776. 4pyrrole_Mease_sub2.
IPR006362. Cbl_synth_CobM/CibF.
IPR003043. Uropor_MeTrfase_CS.
[Graphical view]
PfamiPF00590. TP_methylase. 1 hit.
[Graphical view]
SUPFAMiSSF53790. SSF53790. 1 hit.
TIGRFAMsiTIGR01465. cobM_cbiF. 1 hit.
PROSITEiPS00839. SUMT_1. 1 hit.
PS00840. SUMT_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O68100-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTVHFIGAGP GAADLITIRG RDLIASCPVC LYAGSLVPEA LLAHCPPGAK
60 70 80 90 100
IVNTAPMSLD AIIDTIAEAH AAGQDVARLH SGDLSIWSAM GEQLRRLRAL
110 120 130 140 150
NIPYDVTPGV PSFAAAAATL GAELTLPGVA QSVILTRTSG RASAMPAGET
160 170 180 190 200
LENFARTGAV LAIHLSVHVL DEVVQKLVPH YGEDCPVAIV WRASWPDQRV
210 220 230 240 250
VRATLATLQT SLGAELERTA LILVGRSLAT EDFDESRLYA GDYDRRYRPL
260
GTHPRFPEGS E
Length:261
Mass (Da):27,704
Last modified:August 1, 1998 - v1
Checksum:iAAEDA90B8642DCDB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF010496 Genomic DNA. Translation: AAC16190.1.
CP001312 Genomic DNA. Translation: ADE85784.1.
PIRiT03537.
RefSeqiWP_013067763.1. NC_014034.1.

Genome annotation databases

EnsemblBacteriaiADE85784; ADE85784; RCAP_rcc02040.
KEGGircp:RCAP_rcc02040.
PATRICi35504242. VBIRhoCap134200_2074.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF010496 Genomic DNA. Translation: AAC16190.1.
CP001312 Genomic DNA. Translation: ADE85784.1.
PIRiT03537.
RefSeqiWP_013067763.1. NC_014034.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3NDCX-ray2.00A/B1-261[»]
3NEIX-ray2.50A/B1-261[»]
ProteinModelPortaliO68100.
SMRiO68100.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272942.RCAP_rcc02040.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADE85784; ADE85784; RCAP_rcc02040.
KEGGircp:RCAP_rcc02040.
PATRICi35504242. VBIRhoCap134200_2074.

Phylogenomic databases

eggNOGiENOG4105CIA. Bacteria.
COG2875. LUCA.
HOGENOMiHOG000290520.
KOiK05936.
OMAiATMAIHL.
OrthoDBiPOG091H023O.

Enzyme and pathway databases

UniPathwayiUPA00148; UER00215.

Miscellaneous databases

EvolutionaryTraceiO68100.

Family and domain databases

CDDicd11641. Precorrin-4_C11-MT. 1 hit.
Gene3Di3.30.950.10. 1 hit.
3.40.1010.10. 1 hit.
InterProiIPR000878. 4pyrrol_Mease.
IPR014777. 4pyrrole_Mease_sub1.
IPR014776. 4pyrrole_Mease_sub2.
IPR006362. Cbl_synth_CobM/CibF.
IPR003043. Uropor_MeTrfase_CS.
[Graphical view]
PfamiPF00590. TP_methylase. 1 hit.
[Graphical view]
SUPFAMiSSF53790. SSF53790. 1 hit.
TIGRFAMsiTIGR01465. cobM_cbiF. 1 hit.
PROSITEiPS00839. SUMT_1. 1 hit.
PS00840. SUMT_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCOBM_RHOCB
AccessioniPrimary (citable) accession number: O68100
Secondary accession number(s): D5AV02
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 29, 2001
Last sequence update: August 1, 1998
Last modified: November 2, 2016
This is version 85 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.