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Protein

Nucleoside diphosphate kinase

Gene

ndk

Organism
Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate.UniRule annotation

Catalytic activityi

ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.UniRule annotation

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111ATPUniRule annotation
Binding sitei59 – 591ATPUniRule annotation
Binding sitei87 – 871ATPUniRule annotation
Binding sitei93 – 931ATPUniRule annotation
Binding sitei104 – 1041ATPUniRule annotation
Binding sitei114 – 1141ATPUniRule annotation
Active sitei117 – 1171Pros-phosphohistidine intermediateUniRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. metal ion binding Source: UniProtKB-KW
  3. nucleoside diphosphate kinase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. CTP biosynthetic process Source: UniProtKB-HAMAP
  2. GTP biosynthetic process Source: UniProtKB-HAMAP
  3. UTP biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Biological processi

Nucleotide metabolism

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciNEUR228410:GJNO-152-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Nucleoside diphosphate kinaseUniRule annotation (EC:2.7.4.6UniRule annotation)
Short name:
NDKUniRule annotation
Short name:
NDP kinaseUniRule annotation
Alternative name(s):
Nucleoside-2-P kinaseUniRule annotation
Gene namesi
Name:ndkUniRule annotation
Ordered Locus Names:NE0144
OrganismiNitrosomonas europaea (strain ATCC 19718 / NBRC 14298)
Taxonomic identifieri228410 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNitrosomonadalesNitrosomonadaceaeNitrosomonas
ProteomesiUP000001416 Componenti: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 141141Nucleoside diphosphate kinasePRO_0000137014Add
BLAST

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Homotetramer.UniRule annotation

Protein-protein interaction databases

STRINGi228410.NE0144.

Structurei

3D structure databases

ProteinModelPortaliQ82XV5.
SMRiQ82XV5. Positions 2-140.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NDK family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0105.
HOGENOMiHOG000224565.
KOiK00940.
OMAiPFYEPLV.
OrthoDBiEOG67DPRV.
PhylomeDBiQ82XV5.

Family and domain databases

Gene3Di3.30.70.141. 1 hit.
HAMAPiMF_00451. NDP_kinase.
InterProiIPR001564. Nucleoside_diP_kinase.
IPR023005. Nucleoside_diP_kinase_AS.
[Graphical view]
PfamiPF00334. NDK. 1 hit.
[Graphical view]
PRINTSiPR01243. NUCDPKINASE.
SMARTiSM00562. NDK. 1 hit.
[Graphical view]
SUPFAMiSSF54919. SSF54919. 1 hit.
PROSITEiPS00469. NDP_KINASES. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q82XV5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAVERTLSII KPDAVAKNVI GQIYARFEAA GLKVVAARMA HLSRVEAENF
60 70 80 90 100
YAIHRERPFF KDLVEFMISG PVMIQVLEGE NAIARNRELM GATDPRKAEK
110 120 130 140
GTIRADFAES IDANAVHGSD APETAVVEIA CFFPSLEIHS R
Length:141
Mass (Da):15,541
Last modified:May 31, 2003 - v1
Checksum:i882ED7A944629FDC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL954747 Genomic DNA. Translation: CAD84055.1.
RefSeqiNP_840240.1. NC_004757.1.

Genome annotation databases

EnsemblBacteriaiCAD84055; CAD84055; NE0144.
KEGGineu:NE0144.
PATRICi22711093. VBINitEur56163_0163.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL954747 Genomic DNA. Translation: CAD84055.1.
RefSeqiNP_840240.1. NC_004757.1.

3D structure databases

ProteinModelPortaliQ82XV5.
SMRiQ82XV5. Positions 2-140.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi228410.NE0144.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAD84055; CAD84055; NE0144.
KEGGineu:NE0144.
PATRICi22711093. VBINitEur56163_0163.

Phylogenomic databases

eggNOGiCOG0105.
HOGENOMiHOG000224565.
KOiK00940.
OMAiPFYEPLV.
OrthoDBiEOG67DPRV.
PhylomeDBiQ82XV5.

Enzyme and pathway databases

BioCyciNEUR228410:GJNO-152-MONOMER.

Family and domain databases

Gene3Di3.30.70.141. 1 hit.
HAMAPiMF_00451. NDP_kinase.
InterProiIPR001564. Nucleoside_diP_kinase.
IPR023005. Nucleoside_diP_kinase_AS.
[Graphical view]
PfamiPF00334. NDK. 1 hit.
[Graphical view]
PRINTSiPR01243. NUCDPKINASE.
SMARTiSM00562. NDK. 1 hit.
[Graphical view]
SUPFAMiSSF54919. SSF54919. 1 hit.
PROSITEiPS00469. NDP_KINASES. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the ammonia-oxidizing bacterium and obligate chemolithoautotroph Nitrosomonas europaea."
    Chain P., Lamerdin J.E., Larimer F.W., Regala W., Lao V., Land M.L., Hauser L., Hooper A.B., Klotz M.G., Norton J., Sayavedra-Soto L.A., Arciero D.M., Hommes N.G., Whittaker M.M., Arp D.J.
    J. Bacteriol. 185:2759-2773(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 19718 / NBRC 14298.

Entry informationi

Entry nameiNDK_NITEU
AccessioniPrimary (citable) accession number: Q82XV5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 13, 2003
Last sequence update: May 31, 2003
Last modified: March 31, 2015
This is version 80 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

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.