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Protein

Nucleoside diphosphate kinase

Gene

ndk

Organism
Myxococcus xanthus
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Major role in the synthesis of nucleoside triphosphates other than ATP.

Catalytic activityi

ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.

Cofactori

Mg2+By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei11ATP1
Binding sitei59ATP1
Binding sitei87ATP1
Binding sitei93ATP1
Binding sitei104ATP1
Binding sitei114ATP1
Active sitei117Pros-phosphohistidine intermediate1

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

Names & Taxonomyi

Protein namesi
Recommended name:
Nucleoside diphosphate kinase (EC:2.7.4.6)
Short name:
NDK
Short name:
NDP kinase
Alternative name(s):
Nucleoside-2-P kinase
Gene namesi
Name:ndk
OrganismiMyxococcus xanthus
Taxonomic identifieri34 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaMyxococcalesCystobacterineaeMyxococcaceaeMyxococcus

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001370112 – 145Nucleoside diphosphate kinaseAdd BLAST144

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Homotetramer.1 Publication

Protein-protein interaction databases

STRINGi246197.MXAN_3543.

Structurei

Secondary structure

1145
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 10Combined sources8
Helixi12 – 16Combined sources5
Helixi20 – 29Combined sources10
Beta strandi33 – 40Combined sources8
Helixi44 – 50Combined sources7
Helixi52 – 54Combined sources3
Helixi60 – 67Combined sources8
Beta strandi72 – 80Combined sources9
Helixi82 – 90Combined sources9
Helixi95 – 97Combined sources3
Helixi103 – 107Combined sources5
Beta strandi110 – 113Combined sources4
Beta strandi115 – 118Combined sources4
Helixi122 – 132Combined sources11
Helixi135 – 137Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NHKX-ray1.90L/R2-145[»]
1NLKX-ray2.00L/R2-145[»]
2NCKX-ray2.00L/R2-145[»]
ProteinModelPortaliP15266.
SMRiP15266.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP15266.

Family & Domainsi

Sequence similaritiesi

Belongs to the NDK family.Curated

Phylogenomic databases

eggNOGiENOG4108UGX. Bacteria.
COG0105. LUCA.

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.

Sequence processingi: The displayed sequence is further processed into a mature form.

P15266-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAIERTLSII KPDGLEKGVI GKIISRFEEK GLKPVAIRLQ HLSQAQAEGF
60 70 80 90 100
YAVHKARPFF KDLVQFMISG PVVLMVLEGE NAVLANRDIM GATNPAQAAE
110 120 130 140
GTIRKDFATS IDKNTVHGSD SLENAKIEIA YFFRETEIHS YPYQK
Length:145
Mass (Da):16,135
Last modified:January 23, 2007 - v3
Checksum:i29EA957F3E473FBA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05207 Genomic DNA. Translation: AAA25400.1.
PIRiA35539.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05207 Genomic DNA. Translation: AAA25400.1.
PIRiA35539.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NHKX-ray1.90L/R2-145[»]
1NLKX-ray2.00L/R2-145[»]
2NCKX-ray2.00L/R2-145[»]
ProteinModelPortaliP15266.
SMRiP15266.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi246197.MXAN_3543.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiENOG4108UGX. Bacteria.
COG0105. LUCA.

Miscellaneous databases

EvolutionaryTraceiP15266.

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_MYXXA
AccessioniPrimary (citable) accession number: P15266
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1990
Last sequence update: January 23, 2007
Last modified: November 2, 2016
This is version 104 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Direct protein sequencing

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.