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Q1C5I4

- NDK_YERPA

UniProt

Q1C5I4 - NDK_YERPA

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Protein

Nucleoside diphosphate kinase

Gene

ndk

Organism
Yersinia pestis bv. Antiqua (strain Antiqua)
Status
Reviewed - 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

BioCyciYPES360102:GHZU-2377-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:YPA_2323
OrganismiYersinia pestis bv. Antiqua (strain Antiqua)
Taxonomic identifieri360102 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000001971: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 142142Nucleoside diphosphate kinasePRO_0000267809Add
BLAST

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Homotetramer.UniRule annotation

Protein-protein interaction databases

STRINGi360102.YPA_2323.

Structurei

3D structure databases

ProteinModelPortaliQ1C5I4.
SMRiQ1C5I4. Positions 2-142.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NDK family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0105.
HOGENOMiHOG000224565.
KOiK00940.
OMAiFTEDEIC.
OrthoDBiEOG67DPRV.

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.

Q1C5I4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MALERTFSII KPNAVANNDI GAIYARFERA GFKIIAAKML HLTKEQAEGF
60 70 80 90 100
YAEHKGRPFF DGLVEFMTSG PIMVQVLEGE NAVQRHRDIM GATNPDNALA
110 120 130 140
GTLRADFSDS FTANAVHGSD AVESAQREIA YFFAADEIFP RS
Length:142
Mass (Da):15,631
Last modified:July 11, 2006 - v1
Checksum:i414F5C3F56303A8D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000308 Genomic DNA. Translation: ABG14288.1.
RefSeqiYP_652233.1. NC_008150.1.

Genome annotation databases

EnsemblBacteriaiABG14288; ABG14288; YPA_2323.
GeneIDi4118192.
KEGGiypa:YPA_2323.
PATRICi18584190. VBIYerPes1796_2906.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000308 Genomic DNA. Translation: ABG14288.1 .
RefSeqi YP_652233.1. NC_008150.1.

3D structure databases

ProteinModelPortali Q1C5I4.
SMRi Q1C5I4. Positions 2-142.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 360102.YPA_2323.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABG14288 ; ABG14288 ; YPA_2323 .
GeneIDi 4118192.
KEGGi ypa:YPA_2323.
PATRICi 18584190. VBIYerPes1796_2906.

Phylogenomic databases

eggNOGi COG0105.
HOGENOMi HOG000224565.
KOi K00940.
OMAi FTEDEIC.
OrthoDBi EOG67DPRV.

Enzyme and pathway databases

BioCyci YPES360102:GHZU-2377-MONOMER.

Family and domain databases

Gene3Di 3.30.70.141. 1 hit.
HAMAPi MF_00451. NDP_kinase.
InterProi IPR001564. Nucleoside_diP_kinase.
IPR023005. Nucleoside_diP_kinase_AS.
[Graphical view ]
Pfami PF00334. NDK. 1 hit.
[Graphical view ]
PRINTSi PR01243. NUCDPKINASE.
SMARTi SM00562. NDK. 1 hit.
[Graphical view ]
SUPFAMi SSF54919. SSF54919. 1 hit.
PROSITEi PS00469. NDP_KINASES. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: evidence of gene reduction in an emerging pathogen."
    Chain P.S.G., Hu P., Malfatti S.A., Radnedge L., Larimer F., Vergez L.M., Worsham P., Chu M.C., Andersen G.L.
    J. Bacteriol. 188:4453-4463(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Antiqua.

Entry informationi

Entry nameiNDK_YERPA
AccessioniPrimary (citable) accession number: Q1C5I4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 12, 2006
Last sequence update: July 11, 2006
Last modified: November 26, 2014
This is version 56 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