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Q8UEM4

- NRDJ_AGRT5

UniProt

Q8UEM4 - NRDJ_AGRT5

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Protein

Vitamin B12-dependent ribonucleotide reductase

Gene

nrdJ

Organism
Agrobacterium tumefaciens (strain C58 / ATCC 33970)
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).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 – 1531SubstrateBy similarity
Binding sitei230 – 2301Substrate; via amide nitrogenBy similarity
Active sitei474 – 4741Proton acceptorBy similarity
Active sitei476 – 4761Cysteine radical intermediateBy similarity
Active sitei478 – 4781Proton acceptorBy 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

Enzyme and pathway databases

BioCyciAGRO:ATU1733-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:Atu1733
ORF Names:AGR_C_3183
OrganismiAgrobacterium tumefaciens (strain C58 / ATCC 33970)
Taxonomic identifieri176299 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacteriumAgrobacterium tumefaciens complex
ProteomesiUP000000813: Chromosome circular

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12721272Vitamin B12-dependent ribonucleotide reductasePRO_0000231657Add
BLAST

Amino acid modifications

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

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi176299.Atu1733.

Structurei

3D structure databases

ProteinModelPortaliQ8UEM4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

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

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0209.
HOGENOMiHOG000021770.
KOiK00525.
OMAiTAFDIKF.
OrthoDBiEOG6H4K5F.

Family and domain databases

Gene3Di1.10.10.200. 1 hit.
InterProiIPR017856. Integrase_Zn-bd_dom-like_N.
IPR013678. 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.

Q8UEM4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MRIERRFTKP GQSSYAEIEF RKAVSEIKNP DGSVVFRLAD IDVPAQFSQV
60 70 80 90 100
ATDVLAQKYF RKAGVPKLLK KVEENDVPSF LWRSVADEKA LKELPEAERY
110 120 130 140 150
GSETDARQVF DRLAGTWAYW GWKGKYFSTE EDASAFKDEL AYMLATQRVA
160 170 180 190 200
PNSPQWFNTG LHWAYGIDGP GQGHFYVDPF TGKLTKSKSA YEHPQPHACF
210 220 230 240 250
IQSVEDDLVN EGGIMDLWVR EARLFKYGSG TGSNFSYLRG EGEKLSGGGK
260 270 280 290 300
SSGLMSFLKI GDRAAGAIKS GGTTRRAAKM VVVDADHPDI EAYIDWKVNE
310 320 330 340 350
EQKVAALVTG SKIVAKHLKA IMKACVNCEA DNGDCFDPAK NPALKREIRA
360 370 380 390 400
AKKDMVPENY VKRVIQFAEQ GYKDIQFKTY DTDWDSEAYL TVSGQNSNNS
410 420 430 440 450
VSLKDDFLRA VENDGNWNLT ARKDGKVMKT LKARDLWEKI SHAAWASADP
460 470 480 490 500
GLHFNTTMND WHTSPAEGPI RASNPCSEYM FLDDTACNLA SLNLLQFKDA
510 520 530 540 550
KTKRIDIADY EHAVRLWTVV LEVSVMMAQF PSRQIAERSY EYRTLGLGYA
560 570 580 590 600
NIGGLLMSSG IPYDSDEGRA IAGALTAIMT GVSYATSAEM AGELGPFPSF
610 620 630 640 650
APNRDNMLRV IRNHRRAAHG QSEGYEGLSV NPVALIHADC TDQDLVAHAT
660 670 680 690 700
AAWDKALELG EKHGYRNAQT TVIAPTGTIG LVMDCDTTGI EPDFALVKFK
710 720 730 740 750
KLAGGGYFKI INRAVPESLR SLGYSESQIA EIEAYAVGHG NLNQAPAINP
760 770 780 790 800
STLKAKGFTD EKIEAVNAAL KSAFDIKFVF NQWTLGADFL KGTLKVSDEQ
810 820 830 840 850
LSDMSFNLLD HLGFAKKDIE AANVHVCGAM TLEGAPFLKN EHLAVFDCAN
860 870 880 890 900
PCGKIGKRYL SVESHIRMMA AAQPFISGAI SKTINMPNDA TVEDCGAAYM
910 920 930 940 950
LSWKLALKAN ALYRDGSKLS QPLNASLVED EDDEDFVEEL IQQPLAQQAV
960 970 980 990 1000
TITEKIVERV IERVSREREK LPNRRQGYTQ KATVGGHKVY LRTGEFGDGR
1010 1020 1030 1040 1050
IGEIFIDMHK EGAAFRAMMN NFAIAISLGL QYGVPLEEYV EAFTFTKFEP
1060 1070 1080 1090 1100
AGMVQGNDAI KNATSILDYV FRELAVSYLG RHDLAHVDTS DFSNTALGKG
1110 1120 1130 1140 1150
IQEGKTNLLS TGWTRGYKPT LVSSNEGDRA ASEPKGSATA APARGSANVT
1160 1170 1180 1190 1200
SFAGSAARKL EPTVAITTSE IVSFKRDYEE RAKELAEEIA EEVIDEVVQE
1210 1220 1230 1240 1250
AQQTATALFS DKAAADAASA KAEAKKKENE RRMRSIAQGY TGNMCSECQN
1260 1270
FTMVRNGTCE KCDTCGATSG CS
Length:1,272
Mass (Da):139,623
Last modified:June 1, 2002 - v1
Checksum:i3FA22DCC85AC6E2D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE007869 Genomic DNA. Translation: AAK87503.1.
PIRiAF2789.
F97568.
RefSeqiNP_354718.1. NC_003062.2.

Genome annotation databases

EnsemblBacteriaiAAK87503; AAK87503; Atu1733.
GeneIDi1139199.
KEGGiatu:Atu1733.
PATRICi20813235. VBIAgrTum91616_1745.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE007869 Genomic DNA. Translation: AAK87503.1 .
PIRi AF2789.
F97568.
RefSeqi NP_354718.1. NC_003062.2.

3D structure databases

ProteinModelPortali Q8UEM4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 176299.Atu1733.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAK87503 ; AAK87503 ; Atu1733 .
GeneIDi 1139199.
KEGGi atu:Atu1733.
PATRICi 20813235. VBIAgrTum91616_1745.

Phylogenomic databases

eggNOGi COG0209.
HOGENOMi HOG000021770.
KOi K00525.
OMAi TAFDIKF.
OrthoDBi EOG6H4K5F.

Enzyme and pathway databases

BioCyci AGRO:ATU1733-MONOMER.

Family and domain databases

Gene3Di 1.10.10.200. 1 hit.
InterProi IPR017856. Integrase_Zn-bd_dom-like_N.
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: C58 / ATCC 33970.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C58 / ATCC 33970.

Entry informationi

Entry nameiNRDJ_AGRT5
AccessioniPrimary (citable) accession number: Q8UEM4
Secondary accession number(s): Q7CYN2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 4, 2006
Last sequence update: June 1, 2002
Last modified: October 1, 2014
This is version 83 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