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Protein

Nucleoside diphosphate kinase

Gene

ndk

Organism
Burkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CIP 106301 / E264)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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

GO - Biological processi

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

BioCyciBTHA271848:GJMY-2232-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:BTH_I2231
OrganismiBurkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CIP 106301 / E264)
Taxonomic identifieri271848 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiapseudomallei group
Proteomesi
  • UP000001930 Componenti: Chromosome I

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 141141Nucleoside diphosphate kinasePRO_0000242495Add
BLAST

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Homotetramer.UniRule annotation

Structurei

Secondary structure

1
141
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 108Combined sources
Helixi12 – 165Combined sources
Helixi20 – 2910Combined sources
Beta strandi33 – 408Combined sources
Helixi44 – 507Combined sources
Helixi52 – 543Combined sources
Helixi60 – 678Combined sources
Beta strandi72 – 809Combined sources
Helixi82 – 909Combined sources
Turni95 – 973Combined sources
Helixi103 – 1075Combined sources
Beta strandi110 – 1134Combined sources
Beta strandi115 – 1184Combined sources
Helixi122 – 13211Combined sources
Helixi135 – 1373Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DUTX-ray2.50A/B1-141[»]
4EK2X-ray2.00A/B1-141[»]
4HR2X-ray1.95A/B1-141[»]
ProteinModelPortaliQ2SWE7.
SMRiQ2SWE7. Positions 2-140.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NDK family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000224565.
KOiK00940.
OMAiISHPHSI.
OrthoDBiPOG091H040S.

Family and domain databases

HAMAPiMF_00451. NDP_kinase. 1 hit.
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]
PROSITEiPS00469. NDP_KINASES. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q2SWE7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALERTLSII KPDAVAKNVI GQIYSRFENA GLKIVAARMA HLSRADAEKF
60 70 80 90 100
YAVHAERPFF KDLVEFMISG PVMIQVLEGE DAILKNRDLM GATDPKKAEK
110 120 130 140
GTIRADFADS IDANAVHGSD APETARVEIA FFFPEMNVYS R
Length:141
Mass (Da):15,618
Last modified:January 24, 2006 - v1
Checksum:i30DDF4CDC82EF604
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000086 Genomic DNA. Translation: ABC37309.1.
RefSeqiWP_009890817.1. NZ_CM000438.1.

Genome annotation databases

EnsemblBacteriaiABC37309; ABC37309; BTH_I2231.
KEGGibte:BTH_I2231.
PATRICi19307530. VBIBurTha36512_5051.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000086 Genomic DNA. Translation: ABC37309.1.
RefSeqiWP_009890817.1. NZ_CM000438.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DUTX-ray2.50A/B1-141[»]
4EK2X-ray2.00A/B1-141[»]
4HR2X-ray1.95A/B1-141[»]
ProteinModelPortaliQ2SWE7.
SMRiQ2SWE7. Positions 2-140.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABC37309; ABC37309; BTH_I2231.
KEGGibte:BTH_I2231.
PATRICi19307530. VBIBurTha36512_5051.

Phylogenomic databases

HOGENOMiHOG000224565.
KOiK00940.
OMAiISHPHSI.
OrthoDBiPOG091H040S.

Enzyme and pathway databases

BioCyciBTHA271848:GJMY-2232-MONOMER.

Family and domain databases

HAMAPiMF_00451. NDP_kinase. 1 hit.
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]
PROSITEiPS00469. NDP_KINASES. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNDK_BURTA
AccessioniPrimary (citable) accession number: Q2SWE7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: January 24, 2006
Last modified: September 7, 2016
This is version 72 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

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.