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Protein

Nucleoside diphosphate kinase

Gene

ndk

Organism
Borrelia burgdorferi (strain ATCC 35210 / B31 / CIP 102532 / DSM 4680)
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 (By similarity).By similarity

Catalytic activityi

ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.

Cofactori

Mg2+By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111ATPBy similarity
Binding sitei92 – 921ATPBy similarity
Binding sitei98 – 981ATPBy similarity
Binding sitei109 – 1091ATPBy similarity
Binding sitei129 – 1291ATPBy similarity
Active sitei132 – 1321Pros-phosphohistidine intermediateBy similarity

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

BioCyciBBUR224326:G9SO-468-MONOMER.

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
Ordered Locus Names:BB_0463
OrganismiBorrelia burgdorferi (strain ATCC 35210 / B31 / CIP 102532 / DSM 4680)
Taxonomic identifieri224326 [NCBI]
Taxonomic lineageiBacteriaSpirochaetesSpirochaetalesBorreliaceaeBorreliella
Proteomesi
  • UP000001807 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 167167Nucleoside diphosphate kinasePRO_0000136951Add
BLAST

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Homotetramer.By similarity

Protein-protein interaction databases

STRINGi224326.BB_0463.

Structurei

Secondary structure

1
167
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 108Combined sources
Helixi12 – 165Combined sources
Helixi20 – 3011Combined sources
Beta strandi33 – 419Combined sources
Helixi44 – 507Combined sources
Helixi53 – 597Combined sources
Helixi62 – 7211Combined sources
Beta strandi75 – 8511Combined sources
Helixi87 – 959Combined sources
Helixi100 – 1023Combined sources
Helixi108 – 1125Combined sources
Helixi117 – 1237Combined sources
Beta strandi130 – 1334Combined sources
Helixi137 – 14711Combined sources
Helixi150 – 1523Combined sources
Helixi161 – 1644Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DI6X-ray2.40A/B/C/D/E/F1-167[»]
4DZ6X-ray2.20A/B/C/D/E/F1-167[»]
ProteinModelPortaliO51419.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NDK family.Curated

Phylogenomic databases

eggNOGiENOG4108UGX. Bacteria.
COG0105. LUCA.
KOiK00940.
OMAiWFHSSEL.
OrthoDBiEOG67DPRV.

Family and domain databases

InterProiIPR001564. Nucleoside_diP_kinase.
[Graphical view]
PfamiPF00334. NDK. 1 hit.
[Graphical view]
PRINTSiPR01243. NUCDPKINASE.
SMARTiSM00562. NDK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O51419-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLLQKTLCIV KPDGVRRGLI GDVVSRFERV GLKMVAAKML IVDESLAKKH
60 70 80 90 100
YLYDDIVFRH SEAVWNSLIK FISNSPVFTF VVEGVESIEV VRKLCGATEP
110 120 130 140 150
KLAIPGTIRG DFSYHSFKYS NEKGFSIYNV IHASANEADA MREIPIWFKD
160
NEILNYKRDD ECEHYYC
Length:167
Mass (Da):19,159
Last modified:September 26, 2001 - v2
Checksum:i4A8E142C253182B8
GO

Sequence cautioni

The sequence AAC66829.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000783 Genomic DNA. Translation: AAC66829.1. Different initiation.
PIRiF70157.
RefSeqiNP_212597.1. NC_001318.1.

Genome annotation databases

EnsemblBacteriaiAAC66829; AAC66829; BB_0463.
GeneIDi1195309.
KEGGibbu:BB_0463.
PATRICi20557554. VBIBorBur75917_0856.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000783 Genomic DNA. Translation: AAC66829.1. Different initiation.
PIRiF70157.
RefSeqiNP_212597.1. NC_001318.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DI6X-ray2.40A/B/C/D/E/F1-167[»]
4DZ6X-ray2.20A/B/C/D/E/F1-167[»]
ProteinModelPortaliO51419.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224326.BB_0463.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC66829; AAC66829; BB_0463.
GeneIDi1195309.
KEGGibbu:BB_0463.
PATRICi20557554. VBIBorBur75917_0856.

Phylogenomic databases

eggNOGiENOG4108UGX. Bacteria.
COG0105. LUCA.
KOiK00940.
OMAiWFHSSEL.
OrthoDBiEOG67DPRV.

Enzyme and pathway databases

BioCyciBBUR224326:G9SO-468-MONOMER.

Family and domain databases

InterProiIPR001564. Nucleoside_diP_kinase.
[Graphical view]
PfamiPF00334. NDK. 1 hit.
[Graphical view]
PRINTSiPR01243. NUCDPKINASE.
SMARTiSM00562. NDK. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35210 / B31 / CIP 102532 / DSM 4680.

Entry informationi

Entry nameiNDK_BORBU
AccessioniPrimary (citable) accession number: O51419
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: September 26, 2001
Last modified: February 17, 2016
This is version 104 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference 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.