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Q1C5I4 (NDK_YERPA) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 52. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Nucleoside diphosphate kinase

Short name=NDK
Short name=NDP kinase
EC=2.7.4.6
Alternative name(s):
Nucleoside-2-P kinase
Gene names
Name:ndk
Ordered Locus Names:YPA_2323
OrganismYersinia pestis bv. Antiqua (strain Antiqua) [Complete proteome] [HAMAP]
Taxonomic identifier360102 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia

Protein attributes

Sequence length142 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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 By similarity. HAMAP-Rule MF_00451

Catalytic activity

ATP + nucleoside diphosphate = ADP + nucleoside triphosphate. HAMAP-Rule MF_00451

Cofactor

Magnesium By similarity. HAMAP-Rule MF_00451

Subunit structure

Homotetramer By similarity. HAMAP-Rule MF_00451

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_00451.

Sequence similarities

Belongs to the NDK family.

Ontologies

Keywords
   Biological processNucleotide metabolism
   Cellular componentCytoplasm
   LigandATP-binding
Magnesium
Metal-binding
Nucleotide-binding
   Molecular functionKinase
Transferase
   PTMPhosphoprotein
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processCTP biosynthetic process

Inferred from electronic annotation. Source: UniProtKB-HAMAP

GTP biosynthetic process

Inferred from electronic annotation. Source: UniProtKB-HAMAP

UTP biosynthetic process

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

nucleoside diphosphate kinase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 142142Nucleoside diphosphate kinase HAMAP-Rule MF_00451
PRO_0000267809

Sites

Active site1171Pros-phosphohistidine intermediate By similarity
Binding site111ATP By similarity
Binding site591ATP By similarity
Binding site871ATP By similarity
Binding site931ATP By similarity
Binding site1041ATP By similarity
Binding site1141ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
Q1C5I4 [UniParc].

Last modified July 11, 2006. Version 1.
Checksum: 414F5C3F56303A8D

FASTA14215,631
        10         20         30         40         50         60 
MALERTFSII KPNAVANNDI GAIYARFERA GFKIIAAKML HLTKEQAEGF YAEHKGRPFF 

        70         80         90        100        110        120 
DGLVEFMTSG PIMVQVLEGE NAVQRHRDIM GATNPDNALA GTLRADFSDS FTANAVHGSD 

       130        140 
AVESAQREIA YFFAADEIFP RS 

« Hide

References

[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000308 Genomic DNA. Translation: ABG14288.1.
RefSeqYP_652233.1. NC_008150.1.

3D structure databases

ProteinModelPortalQ1C5I4.
SMRQ1C5I4. Positions 2-142.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING360102.YPA_2323.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABG14288; ABG14288; YPA_2323.
GeneID4118192.
KEGGypa:YPA_2323.
PATRIC18584190. VBIYerPes1796_2906.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0105.
HOGENOMHOG000224565.
KOK00940.
OMAAEHSERP.
OrthoDBEOG67DPRV.
ProtClustDBPRK00668.

Enzyme and pathway databases

BioCycYPES360102:GHZU-2377-MONOMER.

Family and domain databases

Gene3D3.30.70.141. 1 hit.
HAMAPMF_00451. NDP_kinase.
InterProIPR001564. Nucleoside_diP_kinase.
IPR023005. Nucleoside_diP_kinase_AS.
[Graphical view]
PfamPF00334. NDK. 1 hit.
[Graphical view]
PRINTSPR01243. NUCDPKINASE.
SMARTSM00562. NDK. 1 hit.
[Graphical view]
SUPFAMSSF54919. SSF54919. 1 hit.
PROSITEPS00469. NDP_KINASES. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameNDK_YERPA
AccessionPrimary (citable) accession number: Q1C5I4
Entry history
Integrated into UniProtKB/Swiss-Prot: December 12, 2006
Last sequence update: July 11, 2006
Last modified: February 19, 2014
This is version 52 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families