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Q05603

- COBT_SALTY

UniProt

Q05603 - COBT_SALTY

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Protein

Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase

Gene

cobT

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

Catalyzes the synthesis of alpha-ribazole-5'-phosphate from nicotinate mononucleotide (NAMN) and 5,6-dimethylbenzimidazole (DMB).

Catalytic activityi

Beta-nicotinate D-ribonucleotide + 5,6-dimethylbenzimidazole = nicotinate + alpha-ribazole 5'-phosphate.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei317 – 3171Proton acceptor

GO - Molecular functioni

  1. cobalamin-transporting ATPase activity Source: UniProtKB-HAMAP
  2. nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity Source: CACAO

GO - Biological processi

  1. cobalamin biosynthetic process Source: UniProtKB-KW
  2. nucleoside biosynthetic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Glycosyltransferase, Transferase

Keywords - Biological processi

Cobalamin biosynthesis

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13214.
SENT99287:GCTI-2028-MONOMER.
UniPathwayiUPA00061; UER00516.

Names & Taxonomyi

Protein namesi
Recommended name:
Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (EC:2.4.2.21)
Short name:
NN:DBI PRT
Alternative name(s):
N(1)-alpha-phosphoribosyltransferase
Gene namesi
Name:cobT
Ordered Locus Names:STM2016
OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Taxonomic identifieri99287 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
ProteomesiUP000001014: Chromosome

Pathology & Biotechi

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 356356Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferasePRO_0000167069Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi160 ↔ 256

Keywords - PTMi

Disulfide bond

Proteomic databases

PaxDbiQ05603.
PRIDEiQ05603.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

STRINGi99287.STM2016.

Structurei

Secondary structure

1
356
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi4 – 96Combined sources
Helixi16 – 2712Combined sources
Beta strandi29 – 313Combined sources
Turni33 – 364Combined sources
Helixi37 – 4711Combined sources
Helixi50 – 523Combined sources
Beta strandi60 – 689Combined sources
Helixi71 – 755Combined sources
Helixi84 – 9310Combined sources
Helixi98 – 1069Combined sources
Beta strandi109 – 1168Combined sources
Beta strandi118 – 1203Combined sources
Beta strandi125 – 1273Combined sources
Beta strandi131 – 1344Combined sources
Turni137 – 1393Combined sources
Helixi145 – 16420Combined sources
Beta strandi167 – 1759Combined sources
Turni177 – 1793Combined sources
Helixi180 – 19112Combined sources
Helixi195 – 1984Combined sources
Turni202 – 2043Combined sources
Helixi207 – 2093Combined sources
Helixi210 – 22415Combined sources
Helixi231 – 2388Combined sources
Helixi241 – 25515Combined sources
Helixi265 – 27713Combined sources
Helixi279 – 2846Combined sources
Helixi296 – 3027Combined sources
Helixi319 – 33719Combined sources
Helixi341 – 3444Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1D0SX-ray1.90A1-356[»]
1D0VX-ray1.90A1-356[»]
1JH8X-ray1.80A1-356[»]
1JHAX-ray2.00A1-356[»]
1JHMX-ray2.20A1-356[»]
1JHOX-ray2.00A1-356[»]
1JHPX-ray2.20A1-356[»]
1JHQX-ray2.00A1-356[»]
1JHRX-ray2.00A1-356[»]
1JHUX-ray2.00A1-356[»]
1JHVX-ray2.00A1-356[»]
1JHXX-ray2.00A1-356[»]
1JHYX-ray2.00A1-356[»]
1L4BX-ray1.70A1-356[»]
1L4EX-ray2.00A1-356[»]
1L4FX-ray2.10A1-356[»]
1L4GX-ray2.10A1-356[»]
1L4HX-ray2.10A1-356[»]
1L4KX-ray2.20A1-356[»]
1L4LX-ray2.00A1-356[»]
1L4MX-ray2.00A1-356[»]
1L4NX-ray2.00A1-356[»]
1L5FX-ray1.90A1-356[»]
1L5KX-ray2.00A1-356[»]
1L5LX-ray2.00A1-356[»]
1L5MX-ray2.00A1-356[»]
1L5NX-ray1.90A1-356[»]
1L5OX-ray1.60A1-356[»]
4KQFX-ray1.90A1-356[»]
4KQGX-ray1.90A1-356[»]
4KQHX-ray1.90A1-356[»]
4KQIX-ray1.40A1-356[»]
4KQJX-ray1.95A1-356[»]
4KQKX-ray1.47A/B1-356[»]
ProteinModelPortaliQ05603.
SMRiQ05603. Positions 3-350.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ05603.

Family & Domainsi

Sequence similaritiesi

Belongs to the CobT family.Curated

Phylogenomic databases

eggNOGiCOG2038.
HOGENOMiHOG000263499.
KOiK00768.
OMAiAICSVIT.
OrthoDBiEOG6HF61K.
PhylomeDBiQ05603.

Family and domain databases

Gene3Di1.10.1610.10. 1 hit.
HAMAPiMF_00230. CobT.
InterProiIPR003200. Nict_dMeBzImd_PRibTrfase-like.
IPR023195. Nict_dMeBzImd_PRibTrfase_N.
IPR017846. Nict_dMeBzImd_PRibTrfase_pro.
[Graphical view]
PfamiPF02277. DBI_PRT. 1 hit.
[Graphical view]
SUPFAMiSSF52733. SSF52733. 1 hit.
TIGRFAMsiTIGR03160. cobT_DBIPRT. 1 hit.

Sequencei

Sequence statusi: Complete.

Q05603-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MQTLHALLRD IPAPDAEAMA RAQQHIDGLL KPPGSLGRLE TLAVQLAGMP
60 70 80 90 100
GLNGTPQVGE KAVLVMCADH GVWDEGVAVS PKIVTAIQAA NMTRGTTGVC
110 120 130 140 150
VLAAQAGAKV HVIDVGIDAE PIPGVVNMRV ARGCGNIAVG PAMSRLQAEA
160 170 180 190 200
LLLEVSRYTC DLAQRGVTLF GVGELGMANT TPAAAMVSVF TGSDAKEVVG
210 220 230 240 250
IGANLPPSRI DNKVDVVRRA IAINQPNPRD GIDVLSKVGG FDLVGMTGVM
260 270 280 290 300
LGAARCGLPV LLDGFLSYSA ALAACQIAPA VRPYLIPSHF SAEKGARIAL
310 320 330 340 350
AHLSMEPYLH MAMRLGEGSG AALAMPIVEA ACAMFHNMGE LAASNIVLPE

GNANAT
Length:356
Mass (Da):36,613
Last modified:January 23, 2002 - v5
Checksum:i3665FD3BB1B8A44C
GO

Sequence cautioni

The sequence AAA27271.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence AAA69297.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti22 – 221A → T(PubMed:7883701)Curated
Sequence conflicti22 – 221A → T(PubMed:8501034)Curated
Sequence conflicti158 – 1592YT → CA(PubMed:7883701)Curated
Sequence conflicti158 – 1592YT → CA(PubMed:8501034)Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L35477 Genomic DNA. Translation: AAA69297.1. Different initiation.
AE006468 Genomic DNA. Translation: AAL20920.1.
L12006 Genomic DNA. Translation: AAA27271.1. Different initiation.
RefSeqiNP_460961.1. NC_003197.1.

Genome annotation databases

EnsemblBacteriaiAAL20920; AAL20920; STM2016.
GeneIDi1253537.
KEGGistm:STM2016.
PATRICi32382615. VBISalEnt20916_2138.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L35477 Genomic DNA. Translation: AAA69297.1 . Different initiation.
AE006468 Genomic DNA. Translation: AAL20920.1 .
L12006 Genomic DNA. Translation: AAA27271.1 . Different initiation.
RefSeqi NP_460961.1. NC_003197.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1D0S X-ray 1.90 A 1-356 [» ]
1D0V X-ray 1.90 A 1-356 [» ]
1JH8 X-ray 1.80 A 1-356 [» ]
1JHA X-ray 2.00 A 1-356 [» ]
1JHM X-ray 2.20 A 1-356 [» ]
1JHO X-ray 2.00 A 1-356 [» ]
1JHP X-ray 2.20 A 1-356 [» ]
1JHQ X-ray 2.00 A 1-356 [» ]
1JHR X-ray 2.00 A 1-356 [» ]
1JHU X-ray 2.00 A 1-356 [» ]
1JHV X-ray 2.00 A 1-356 [» ]
1JHX X-ray 2.00 A 1-356 [» ]
1JHY X-ray 2.00 A 1-356 [» ]
1L4B X-ray 1.70 A 1-356 [» ]
1L4E X-ray 2.00 A 1-356 [» ]
1L4F X-ray 2.10 A 1-356 [» ]
1L4G X-ray 2.10 A 1-356 [» ]
1L4H X-ray 2.10 A 1-356 [» ]
1L4K X-ray 2.20 A 1-356 [» ]
1L4L X-ray 2.00 A 1-356 [» ]
1L4M X-ray 2.00 A 1-356 [» ]
1L4N X-ray 2.00 A 1-356 [» ]
1L5F X-ray 1.90 A 1-356 [» ]
1L5K X-ray 2.00 A 1-356 [» ]
1L5L X-ray 2.00 A 1-356 [» ]
1L5M X-ray 2.00 A 1-356 [» ]
1L5N X-ray 1.90 A 1-356 [» ]
1L5O X-ray 1.60 A 1-356 [» ]
4KQF X-ray 1.90 A 1-356 [» ]
4KQG X-ray 1.90 A 1-356 [» ]
4KQH X-ray 1.90 A 1-356 [» ]
4KQI X-ray 1.40 A 1-356 [» ]
4KQJ X-ray 1.95 A 1-356 [» ]
4KQK X-ray 1.47 A/B 1-356 [» ]
ProteinModelPortali Q05603.
SMRi Q05603. Positions 3-350.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 99287.STM2016.

Chemistry

DrugBanki DB00173. Adenine.
DB03255. Phenol.

Proteomic databases

PaxDbi Q05603.
PRIDEi Q05603.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAL20920 ; AAL20920 ; STM2016 .
GeneIDi 1253537.
KEGGi stm:STM2016.
PATRICi 32382615. VBISalEnt20916_2138.

Phylogenomic databases

eggNOGi COG2038.
HOGENOMi HOG000263499.
KOi K00768.
OMAi AICSVIT.
OrthoDBi EOG6HF61K.
PhylomeDBi Q05603.

Enzyme and pathway databases

UniPathwayi UPA00061 ; UER00516 .
BioCyci MetaCyc:MONOMER-13214.
SENT99287:GCTI-2028-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q05603.

Family and domain databases

Gene3Di 1.10.1610.10. 1 hit.
HAMAPi MF_00230. CobT.
InterProi IPR003200. Nict_dMeBzImd_PRibTrfase-like.
IPR023195. Nict_dMeBzImd_PRibTrfase_N.
IPR017846. Nict_dMeBzImd_PRibTrfase_pro.
[Graphical view ]
Pfami PF02277. DBI_PRT. 1 hit.
[Graphical view ]
SUPFAMi SSF52733. SSF52733. 1 hit.
TIGRFAMsi TIGR03160. cobT_DBIPRT. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The end of the cob operon: evidence that the last gene (cobT) catalyzes synthesis of the lower ligand of vitamin B12, dimethylbenzimidazole."
    Chen P., Ailion M., Weyand N., Roth J.R.
    J. Bacteriol. 177:1461-1469(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: LT2.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: LT2 / SGSC1412 / ATCC 700720.
  3. "Characterization of the cobalamin (vitamin B12) biosynthetic genes of Salmonella typhimurium."
    Roth J.R., Lawrence J.G., Rubenfield M., Kieffer-Higgins S., Church G.M.
    J. Bacteriol. 175:3303-3316(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-242.
    Strain: LT2.
  4. "The three-dimensional structures of nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT) from Salmonella typhimurium complexed with 5,6-dimethybenzimidazole and its reaction products determined to 1.9-A resolution."
    Cheong C.-G., Escalante-Semerena J.C., Rayment I.
    Biochemistry 38:16125-16135(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS), SEQUENCE REVISION TO 158.

Entry informationi

Entry nameiCOBT_SALTY
AccessioniPrimary (citable) accession number: Q05603
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: January 23, 2002
Last modified: November 26, 2014
This is version 124 of the entry and version 5 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

External Data

Dasty 3