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Q89MB9

- NRDJ_BRADU

UniProt

Q89MB9 - NRDJ_BRADU

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Protein
Vitamin B12-dependent ribonucleotide reductase
Gene
nrdJ, bll4274
Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
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 sitei153 – 1531Substrate By similarity
Binding sitei230 – 2301Substrate; via amide nitrogen By similarity
Active sitei474 – 4741Proton acceptor By similarity
Active sitei476 – 4761Cysteine radical intermediate By similarity
Active sitei478 – 4781Proton 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
Complete GO annotation...

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

Enzyme and pathway databases

BioCyciBJAP224911:GJEJ-4300-MONOMER.
RETL1328306-WGS:GSTH-1794-MONOMER.

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:bll4274
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
ProteomesiUP000002526: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12541254Vitamin B12-dependent ribonucleotide reductase
PRO_0000231658Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi199 ↔ 487Redox-active By similarity

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi224911.bll4274.

Structurei

3D structure databases

ProteinModelPortaliQ89MB9.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni198 – 1992Substrate binding By similarity
Regioni474 – 4785Substrate binding By similarity
Regioni675 – 6795Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0209.
HOGENOMiHOG000021770.
KOiK00525.
OrthoDBiEOG6H4K5F.
PhylomeDBiQ89MB9.

Family and domain databases

InterProiIPR013678. RNR_2_N.
IPR000788. RNR_lg_C.
IPR013344. RNR_NrdJ/NrdZ.
IPR024434. TSCPD_dom.
IPR029072. YebC-like.
[Graphical view]
PfamiPF08471. Ribonuc_red_2_N. 1 hit.
PF02867. Ribonuc_red_lgC. 2 hits.
PF12637. TSCPD. 1 hit.
[Graphical view]
PRINTSiPR01183. RIBORDTASEM1.
SUPFAMiSSF75625. SSF75625. 1 hit.
TIGRFAMsiTIGR02504. NrdJ_Z. 1 hit.

Sequencei

Sequence statusi: Complete.

Q89MB9-1 [UniParc]FASTAAdd to Basket

« Hide

MRIERRHTTT GQSPYAGIDF RLTTSEIRNP DGSVVFKLDN VEVPTEWSQV     50
ASDVLAQKYF RKAGVAARLK KVEEESVPSF LWRSVPDTEA LSQLPEKERY 100
VSELSAKQVF DRLAGCWTYW GWKGGYFTND EDAQAFYDEL RYMLAMQMVA 150
PNSPQWFNTG LHWAYGIDGP GQGHYYVDPF TGKLTKSKSA YEHPQPHACF 200
IQGVGDDLVN EGGIMDLWVR EARLFKYGSG TGSNFSRLRG EGEKLSGGGR 250
SSGLMSFLKI GDRAAGAIKS GGTTRRAAKM VVVDVDHPDI ETYIDWKVKE 300
EQKVAALVTG SKINQKHLKA VLKACVNCEG SGDDCFDPEK NPALRREIKL 350
ARRSLVPDNY IKRVIQFAKQ GYKDIQFDVY DTDWDSEAYL TVSGQNSNNS 400
VSLKDDFLRA VETDGDWNLN ARTSKKVTKT LKARDLWEKI GYAAWASADP 450
GLHFNTTMND WHTCKASGDI RASNPCSEYM FLDDTACNLA SANLLTFYNV 500
ATKHFDVEGY EHLCRLWTVV LEISVMMAQF PSKAIAELSY EFRTLGLGYA 550
NIGGLLMTMG LPYDSKEGRA LCGALTAVMT GITYKTSAEI AAELGTFPGY 600
KKNAAHMLRV IRNHRRAAHG QSNGYEALSV NPVPLDLVSC PQADLVSHAQ 650
AAWDAALELG EKHGYRNAQT TVIAPTGTIG LVMDCDTTGI EPDFALVKFK 700
KLAGGGYFKI INRAVPAALR ALGYRESEIA EIEAYAVGHG SLSNAPGINA 750
STLKAKGFTD EAIAKVEKAL PTAFDIKFAF NKWTFGEDFI RDQLGIGAEA 800
IAAPGFDLLQ AVGFTKREIE AANVHICGAM TVEGAPHLKA EHYPVFDCAN 850
PCGKIGKRYL SVESHIRMMA AAQPFISGAI SKTINMPNDA TVEDCKSAYM 900
LSWKLALKAN ALYRDGSKLS QPLNSQLIAD DEDEDDAVES LYEKPMAART 950
AQVSEKIVEK LVERIIVMRE REKMPDRRKG YTQKAVVGGH KVYLRTGEYD 1000
DGRLGEIFID MHKEGAALRS FINNFAIAVS LGLQYGVPLD EYVDAFTFTR 1050
FEPAGPVQGN DSIKYATSIL DYVFRELAVS YMSRFDLAHV DPTESNFDAL 1100
GKGVEEGKEP DEGHHASKLV SRGLTRSRTD NLVVMRGGST AVAQGNDSAP 1150
SGGSKVTALA SHGASARVGD VLEGAVALKQ EVSHDLSPTE KLEALQWSKS 1200
GTAQTLVPSK AERRAEAKAK GYEGEMCSEC GNFTLVRNGT CMKCDTCGST 1250
TGCS 1254
Length:1,254
Mass (Da):137,465
Last modified:June 1, 2003 - v1
Checksum:iFF888DB9EE21A33B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000040 Genomic DNA. Translation: BAC49539.1.
RefSeqiNP_770914.1. NC_004463.1.

Genome annotation databases

EnsemblBacteriaiBAC49539; BAC49539; BAC49539.
GeneIDi1053203.
KEGGibja:bll4274.
PATRICi21192088. VBIBraJap65052_4300.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000040 Genomic DNA. Translation: BAC49539.1 .
RefSeqi NP_770914.1. NC_004463.1.

3D structure databases

ProteinModelPortali Q89MB9.
ModBasei Search...

Protein-protein interaction databases

STRINGi 224911.bll4274.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAC49539 ; BAC49539 ; BAC49539 .
GeneIDi 1053203.
KEGGi bja:bll4274.
PATRICi 21192088. VBIBraJap65052_4300.

Phylogenomic databases

eggNOGi COG0209.
HOGENOMi HOG000021770.
KOi K00525.
OrthoDBi EOG6H4K5F.
PhylomeDBi Q89MB9.

Enzyme and pathway databases

BioCyci BJAP224911:GJEJ-4300-MONOMER.
RETL1328306-WGS:GSTH-1794-MONOMER.

Family and domain databases

InterProi IPR013678. RNR_2_N.
IPR000788. RNR_lg_C.
IPR013344. RNR_NrdJ/NrdZ.
IPR024434. TSCPD_dom.
IPR029072. YebC-like.
[Graphical view ]
Pfami PF08471. Ribonuc_red_2_N. 1 hit.
PF02867. Ribonuc_red_lgC. 2 hits.
PF12637. TSCPD. 1 hit.
[Graphical view ]
PRINTSi PR01183. RIBORDTASEM1.
SUPFAMi SSF75625. SSF75625. 1 hit.
TIGRFAMsi TIGR02504. NrdJ_Z. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

Entry informationi

Entry nameiNRDJ_BRADU
AccessioniPrimary (citable) accession number: Q89MB9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 4, 2006
Last sequence update: June 1, 2003
Last modified: July 9, 2014
This is version 77 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi