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Entry version 138 (07 Oct 2020)
Sequence version 1 (01 Jan 1998)
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Protein

Vitamin B12-dependent ribonucleotide reductase

Gene

nrdJ

Organism
Thermotoga maritima
Status
Unreviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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.UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

adenosylcob(III)alaminUniRule annotationARBA annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: DNA replication

This protein is involved in the pathway DNA replication, which is part of Genetic information processing.ARBA annotation
View all proteins of this organism that are known to be involved in the pathway DNA replication and in Genetic information processing.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei26TTPCombined sources1
Binding sitei91ADPCombined sources1
Binding sitei91CDPCombined sources1
Binding sitei91TTPCombined sources1
Binding sitei91UDPCombined sources1
Binding sitei133ADP; via carbonyl oxygenCombined sources1
Binding sitei133CDP; via carbonyl oxygenCombined sources1
Binding sitei133UDP; via carbonyl oxygenCombined sources1
Binding sitei158TTPCombined sources1
Binding sitei162CDP; via amide nitrogenCombined sources1
Binding sitei171TTPCombined sources1
Binding sitei185TTPCombined sources1
Binding sitei202ADPCombined sources1
Binding sitei203CDPCombined sources1
Binding sitei203UDPCombined sources1
Binding sitei210ADP; via amide nitrogenCombined sources1
Binding sitei324TTPCombined sources1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi141 – 143TTPCombined sources3
Nucleotide bindingi178 – 179TTPCombined sources2
Nucleotide bindingi200 – 202TTPCombined sources3
Nucleotide bindingi207 – 208CDPCombined sources2
Nucleotide bindingi320 – 324ADPCombined sources5
Nucleotide bindingi320 – 324CDPCombined sources5
Nucleotide bindingi320 – 324UDPCombined sources5
Nucleotide bindingi490 – 494ADPCombined sources5
Nucleotide bindingi490 – 494CDPCombined sources5
Nucleotide bindingi490 – 494TTPCombined sources5
Nucleotide bindingi490 – 494UDPCombined sources5

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionOxidoreductaseUniRule annotationARBA annotation
Biological processDNA replicationARBA annotation, DNA synthesisUniRule annotationARBA annotation
LigandCobalaminUniRule annotationARBA annotation, Cobalt, Nucleotide-bindingUniRule annotationCombined sources

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MetaCyc:MONOMER-15779

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
1.17.4.1, 6331

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00326

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Vitamin B12-dependent ribonucleotide reductaseUniRule annotation (EC:1.17.4.1UniRule annotation)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:nrdJImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiThermotoga maritimaImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri2336 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeThermotoga

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the PTM / Processing":/help/ptm_processing_section section describes the positions of cysteine residues participating in disulfide bonds.<p><a href='/help/disulfid' target='_top'>More...</a></p>Disulfide bondi134 ↔ 333Combined sources

Keywords - PTMi

Disulfide bondARBA annotation

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
O33839

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
O33839

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini15 – 99Ribonuc_red_lgNInterPro annotationAdd BLAST85
Domaini132 – 628RIBORED_LARGEInterPro annotationAdd BLAST497

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the ribonucleoside diphosphate reductase class-2 family.UniRule annotationARBA annotation

Phylogenomic databases

KEGG Orthology (KO)

More...
KOi
K00525

Family and domain databases

Conserved Domains Database

More...
CDDi
cd02888, RNR_II_dimer, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000788, RNR_lg_C
IPR013509, RNR_lsu_N
IPR013344, RNR_NrdJ/NrdZ
IPR008926, RNR_R1-su_N

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF02867, Ribonuc_red_lgC, 1 hit
PF00317, Ribonuc_red_lgN, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR01183, RIBORDTASEM1

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48168, SSF48168, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02504, NrdJ_Z, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

O33839-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKLSDLISRW IDVEPSKNAQ IILRDRYFMK DLDGNYLETK WEDVARRVAR
60 70 80 90 100
VVATAELLNP SYKKNEKLDR IKEWEDIFFR VLKARLFIPN SPTLFNAGLG
110 120 130 140 150
VKHDLLWKPI DQMTLEDYEE IYRSRNHLHM LSACFVVPVG DSIEEIFEAV
160 170 180 190 200
KEYALITKVG GGVGSNFSEL RPKGSFVAGT HGKASGPVSF MHVFNSAISV
210 220 230 240 250
VKQGYRRRGA LMGILNINHP DIEEFIDAKK ENTGEAVLNF FNLSVGFPMD
260 270 280 290 300
KKEILKLYEE DGELELSHPR STIRKKVKIR ELFRKIATNA WKSGDPGLAF
310 320 330 340 350
LGEMNKYYPL YPHRKINSTN PCGEIGLSDY EACNLGSIDV AKFYNNGFVD
360 370 380 390 400
LEALQELVQI AVRFLDNVID VNVFPIDKIT KAVKESRRLG LGIMGFADLL
410 420 430 440 450
YKLEIPYNSQ EARDFAANLM AFIALHAHRT SYELGKEKGN FPLLEISRYR
460 470 480 490 500
TEDNFVPFAM GMSNYDDEIR EVMKMTKEFR RNVALLTIAP TGSISNIADT
510 520 530 540 550
SSGLEPNFLL AYTRFVTKED GTKEPLLYVN QVLREKLNPE ILKRIEKELI
560 570 580 590 600
EKGSLKDIPD VPEKIKKVFV VALDIDPMDH LLMQDAFQRY VDNNISKTIN
610 620 630 640 650
MPQSATVDDV LNVYLEALRT NVRGITVYRD GSLQTQVLTK ALKTPEAPKV
660 670 680 690 700
QFFVVDEKLK LHPRPRKDTL RSVTRKYKRP DGTTYITISF DDTGEAVEIF
710 720 730 740 750
ISNGSEMAEA IGRLSSIALR AGVSIDEIVE QLSKVKGEYC KGLAEEIKKA
760 770 780 790 800
LEDFAKLWLR TGEEAPESEE EPIEREKFIV AHNLRWQSGY YVDDEGNVYC
810 820
PVCLSKNSLI KQEGCVSCKN CGWSKCE
Length:827
Mass (Da):94,018
Last modified:January 1, 1998 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iD1B99C7F5DBB4256
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
Y12877 Genomic DNA Translation: CAA73377.1

Protein sequence database of the Protein Information Resource

More...
PIRi
F72414

NCBI Reference Sequences

More...
RefSeqi
WP_004082700.1, NZ_CP011108.1

Genome annotation databases

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
tma:TM0118
tmq:THMB_0114
tmx:THMC_0114

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|2336.4.peg.118

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y12877 Genomic DNA Translation: CAA73377.1
PIRiF72414
RefSeqiWP_004082700.1, NZ_CP011108.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1XJEX-ray1.90A/B1-644[»]
1XJFX-ray2.40A/B1-644[»]
1XJGX-ray2.50A/B1-644[»]
1XJJX-ray1.86A/B1-644[»]
1XJKX-ray2.12A/B1-644[»]
1XJMX-ray2.40A/B1-644[»]
1XJNX-ray2.25A/B/C/D1-644[»]
3O0NX-ray1.95A/B1-644[»]
3O0OX-ray1.90A/B1-644[»]
3O0QX-ray1.80A/B1-644[»]
SMRiO33839
ModBaseiSearch...
PDBe-KBiSearch...

Genome annotation databases

KEGGitma:TM0118
tmq:THMB_0114
tmx:THMC_0114
PATRICifig|2336.4.peg.118

Phylogenomic databases

KOiK00525

Enzyme and pathway databases

UniPathwayiUPA00326
BioCyciMetaCyc:MONOMER-15779
BRENDAi1.17.4.1, 6331

Miscellaneous databases

EvolutionaryTraceiO33839

Family and domain databases

CDDicd02888, RNR_II_dimer, 1 hit
InterProiView protein in InterPro
IPR000788, RNR_lg_C
IPR013509, RNR_lsu_N
IPR013344, RNR_NrdJ/NrdZ
IPR008926, RNR_R1-su_N
PfamiView protein in Pfam
PF02867, Ribonuc_red_lgC, 1 hit
PF00317, Ribonuc_red_lgN, 1 hit
PRINTSiPR01183, RIBORDTASEM1
SUPFAMiSSF48168, SSF48168, 1 hit
TIGRFAMsiTIGR02504, NrdJ_Z, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiO33839_THEMT
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: O33839
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: January 1, 1998
Last sequence update: January 1, 1998
Last modified: October 7, 2020
This is version 138 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structureCombined sources
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