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Q6MNP6

- NRDJ_BDEBA

UniProt

Q6MNP6 - NRDJ_BDEBA

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Protein

Vitamin B12-dependent ribonucleotide reductase

Gene
nrdJ, Bd1196
Organism
Bdellovibrio bacteriovorus (strain ATCC 15356 / DSM 50701 / NCIB 9529 / HD100)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

Catalyzes the reduction of ribonucleotides to deoxyribonucleotides. May function to provide a pool of deoxyribonucleotide precursors for DNA repair during oxygen limitation and/or for immediate growth after restoration of oxygen By similarity.

Catalytic activityi

2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin.

Cofactori

5'-deoxyadenosylcobalamine (coenzyme B12) By similarity.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei127 – 1271Substrate By similarity
Binding sitei200 – 2001Substrate; via amide nitrogen By similarity
Active sitei376 – 3761Proton acceptor By similarity
Active sitei378 – 3781Cysteine radical intermediate By similarity
Active sitei380 – 3801Proton acceptor By similarity

GO - Molecular functioni

  1. cobalamin binding Source: UniProtKB-KW
  2. cobalt ion binding Source: InterPro
  3. nucleotide binding Source: UniProtKB-KW
  4. ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC

GO - Biological processi

  1. DNA replication Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

DNA synthesis

Keywords - Ligandi

Cobalamin, Cobalt, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Vitamin B12-dependent ribonucleotide reductase (EC:1.17.4.1)
Alternative name(s):
Ribonucleoside-diphosphate reductase NrdJ
Gene namesi
Name:nrdJ
Ordered Locus Names:Bd1196
OrganismiBdellovibrio bacteriovorus (strain ATCC 15356 / DSM 50701 / NCIB 9529 / HD100)
Taxonomic identifieri264462 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaBdellovibrionalesBdellovibrionaceaeBdellovibrio
ProteomesiUP000008080: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 764764Vitamin B12-dependent ribonucleotide reductasePRO_0000231656Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi172 ↔ 389Redox-active By similarity

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi264462.Bd1196.

Structurei

3D structure databases

ProteinModelPortaliQ6MNP6.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni171 – 1722Substrate binding By similarity
Regioni376 – 3805Substrate binding By similarity
Regioni561 – 5655Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0209.
HOGENOMiHOG000021771.
KOiK00525.
OMAiAMDCGAT.
OrthoDBiEOG6H4K5F.

Family and domain databases

InterProiIPR013678. RNR_2_N.
IPR000788. RNR_lg_C.
IPR013344. RNR_NrdJ/NrdZ.
[Graphical view]
PfamiPF08471. Ribonuc_red_2_N. 1 hit.
PF02867. Ribonuc_red_lgC. 1 hit.
[Graphical view]
PRINTSiPR01183. RIBORDTASEM1.
TIGRFAMsiTIGR02504. NrdJ_Z. 1 hit.

Sequencei

Sequence statusi: Complete.

Q6MNP6-1 [UniParc]FASTAAdd to Basket

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MKKQTLHSPS YFVSGGKNPE SLFAWKNVNC EIRNRKGEVF FEMKNVEAPE    50
GWSQLAIDIA ASKYFRKVGV PKTGHETSVR QMVDRVVKAI VASAIRQGGY 100
FATRKEADIF AKELKFILLS QRGAFNSPVW FNAGLWEAYK AQSPSEHFAW 150
DEKKKSIQAT KNAYERPQCS ACFIQSVDDS IESIFDLAKT EAKLFKYGSG 200
TGSNFSKIRS KYEATGSGGK SSGLISFLEV LDKGAGAIKS GGTTRRAAKM 250
VVVDIDHPEV LDFIDWKMRE EQKAHLLIAA GLSADFEGEA YRTVSGQNAN 300
NSVRVSDAFM KAVEQERPWK LKARLTGKVL REIPAGEVWN RITRAAWMCA 350
DPGIQFHDTI NKWHTCPETD IIHSSNPCSE YMFLDDSACN LASINLVKFL 400
NDTGDFDFES FIHTARTLFV AQEILVDYSS YPTQRVAQNS HDYRPLGLGF 450
ANLGSLLMRK GVAYDSDEGR AWAGALTSLM SGVAYLTSSE MARAKGPFAG 500
YRKNSKSMLK VMKMHERALN QVAWKMLPAG IDKAVRNLWK GVLYNGEKYG 550
YRNAQATVIA PTGTIGLLMD CDTTGIEPDF SLIKFKKLVG GGEIQIVNQS 600
VDAALASLQY FEDERQAILK YVEENNSVVG APQMHPEDLP VFDTATAMPG 650
QRVLSPESHV KMMAAVQPFI SGAISKTVNM PSTATEEDIS RIYFLAWKLG 700
VKAVAVYRDG SKQSQPLNLK EKPKVVEEVG VPNFTMKCPE CGSDTVLTSG 750
CYRCPNCGTT VGCS 764
Length:764
Mass (Da):84,408
Last modified:July 5, 2004 - v1
Checksum:iB9B5369BEE85DB1E
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BX842649 Genomic DNA. Translation: CAE79105.1.
RefSeqiNP_968112.1. NC_005363.1.

Genome annotation databases

EnsemblBacteriaiCAE79105; CAE79105; Bd1196.
GeneIDi2733233.
KEGGibba:Bd1196.
PATRICi21077002. VBIBdeBac73187_1082.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BX842649 Genomic DNA. Translation: CAE79105.1 .
RefSeqi NP_968112.1. NC_005363.1.

3D structure databases

ProteinModelPortali Q6MNP6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 264462.Bd1196.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAE79105 ; CAE79105 ; Bd1196 .
GeneIDi 2733233.
KEGGi bba:Bd1196.
PATRICi 21077002. VBIBdeBac73187_1082.

Phylogenomic databases

eggNOGi COG0209.
HOGENOMi HOG000021771.
KOi K00525.
OMAi AMDCGAT.
OrthoDBi EOG6H4K5F.

Family and domain databases

InterProi IPR013678. RNR_2_N.
IPR000788. RNR_lg_C.
IPR013344. RNR_NrdJ/NrdZ.
[Graphical view ]
Pfami PF08471. Ribonuc_red_2_N. 1 hit.
PF02867. Ribonuc_red_lgC. 1 hit.
[Graphical view ]
PRINTSi PR01183. RIBORDTASEM1.
TIGRFAMsi TIGR02504. NrdJ_Z. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "A predator unmasked: life cycle of Bdellovibrio bacteriovorus from a genomic perspective."
    Rendulic S., Jagtap P., Rosinus A., Eppinger M., Baar C., Lanz C., Keller H., Lambert C., Evans K.J., Goesmann A., Meyer F., Sockett R.E., Schuster S.C.
    Science 303:689-692(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 15356 / DSM 50701 / NCIB 9529 / HD100.

Entry informationi

Entry nameiNRDJ_BDEBA
AccessioniPrimary (citable) accession number: Q6MNP6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 4, 2006
Last sequence update: July 5, 2004
Last modified: May 14, 2014
This is version 68 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

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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