Q3SL74 (NDK_THIDA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended 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:	Tbd_0590

Organism

Thiobacillus denitrificans (strain ATCC 25259) [Complete proteome] [HAMAP]

Taxonomic identifier

292415 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Betaproteobacteria › Hydrogenophilales › Hydrogenophilaceae › Thiobacillus › Thiobacillus denitrificans

Protein attributes

Sequence length	142 AA.
Sequence status	Complete.
Protein existence	Inferred 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 process	Nucleotide metabolism
Cellular component	Cytoplasm
Ligand	ATP-binding Magnesium Metal-binding Nucleotide-binding
Molecular function	Kinase Transferase
PTM	Phosphoprotein
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	CTP biosynthetic process Inferred from electronic annotation. Source: HAMAP GTP biosynthetic process Inferred from electronic annotation. Source: HAMAP UTP biosynthetic process Inferred from electronic annotation. Source: HAMAP
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW nucleoside diphosphate kinase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 142	142	Nucleoside diphosphate kinase HAMAP-Rule MF_00451		PRO_0000226585
Sites
	Active site	117	1	Pros-phosphohistidine intermediate By similarity
	Binding site	11	1	ATP By similarity
	Binding site	59	1	ATP By similarity
	Binding site	87	1	ATP By similarity
	Binding site	93	1	ATP By similarity
	Binding site	104	1	ATP By similarity
	Binding site	114	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q3SL74 [UniParc]. Last modified October 11, 2005. Version 1. Checksum: 79EF84C8C4D66CD2	FASTA	142	15,429
	10 20 30 40 50 60 MAVQRTFSII KPDAVAKNVI GKIVSRFETN GLKVVASKMK HLSRQEAEGF YAVHKDRPFF 70 80 90 100 110 120 KDLVDFMVSG PVVLQVLEGE DAIAKNRTLM GATDPKKAEP GTIRADFAES IDANAVHGSD 130 140 APETAAVEIA YFFPASEVYA GR

References

[1]

"The genome sequence of the obligately chemolithoautotrophic, facultatively anaerobic bacterium Thiobacillus denitrificans." Beller H.R., Chain P.S., Letain T.E., Chakicherla A., Larimer F.W., Richardson P.M., Coleman M.A., Wood A.P., Kelly D.P. J. Bacteriol. 188:1473-1488(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 25259.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000116 Genomic DNA. Translation: AAZ96543.1.
RefSeq	YP_314348.1. NC_007404.1.
3D structure databases
ProteinModelPortal	Q3SL74.
SMR	Q3SL74. Positions 2-140.
ModBase	Search...
Protein-protein interaction databases
STRING	292415.Tbd_0590.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAZ96543; AAZ96543; Tbd_0590.
GeneID	3673700.
KEGG	tbd:Tbd_0590.
PATRIC	23967337. VBIThiDen82923_0590.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0105.
HOGENOM	HOG000224565.
KO	K00940.
OMA	AEGFYYV.
Enzyme and pathway databases
BioCyc	TDEN292415:GHWG-604-MONOMER.
Family and domain databases
Gene3D	3.30.70.141. 1 hit.
HAMAP	MF_00451. NDP_kinase.
InterPro	IPR001564. Nucleoside_diP_kinase. IPR023005. Nucleoside_diP_kinase_AS. [Graphical view]
PANTHER	PTHR11349. PTHR11349. 1 hit.
Pfam	PF00334. NDK. 1 hit. [Graphical view]
PRINTS	PR01243. NUCDPKINASE.
SMART	SM00562. NDK. 1 hit. [Graphical view]
SUPFAM	SSF54919. NDK. 1 hit.
PROSITE	PS00469. NDP_KINASES. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

NDK_THIDA

Accession

Primary (citable) accession number: Q3SL74

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 7, 2006
Last sequence update:	October 11, 2005
Last modified:	May 29, 2013
This is version 52 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program