Q1IJS7 (NDK_KORVE) 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:	Acid345_3873

Organism

Koribacter versatilis (strain Ellin345)

Taxonomic identifier

204669 [NCBI]

Taxonomic lineage

Bacteria › Acidobacteria › Candidatus Koribacter

Protein attributes

Sequence length	141 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. HAMAP MF_00451
Catalytic activity	ATP + nucleoside diphosphate = ADP + nucleoside triphosphate. HAMAP MF_00451
Cofactor	Magnesium By similarity. HAMAP MF_00451
Subunit structure	Homotetramer By similarity. HAMAP MF_00451
Subcellular location	Cytoplasm By similarity HAMAP 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 Reference proteome
Gene Ontology (GO)
Biological process	CTP biosynthetic process Inferred from electronic annotation. Source: InterPro GTP biosynthetic process Inferred from electronic annotation. Source: InterPro UTP biosynthetic process Inferred from electronic annotation. Source: InterPro
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW nucleoside diphosphate kinase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 141	141	Nucleoside diphosphate kinase HAMAP MF_00451		PRO_0000267766
Sites
	Active site	118	1	Pros-phosphohistidine intermediate By similarity
	Binding site	12	1	ATP By similarity
	Binding site	60	1	ATP By similarity
	Binding site	88	1	ATP By similarity
	Binding site	94	1	ATP By similarity
	Binding site	105	1	ATP By similarity
	Binding site	115	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q1IJS7 [UniParc]. Last modified June 13, 2006. Version 1. Checksum: AC899F5378D1C83C	FASTA	141	15,723
	10 20 30 40 50 60 MKTLQRTLSI IKPDAVEKNA EGDIISILLN NNFRILGIKM LHLTKNQAEG FYAVHANKPF 70 80 90 100 110 120 FHSLTDFMAS GPIVVMCLEK ENAIADYRKL MGATNPANAE EGTIRKKWAA SIEKNAVHGS 130 140 DADDTARFEL SYFFAGYELA R

References

[1]

"Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils." Ward N.L., Challacombe J.F., Janssen P.H., Henrissat B., Coutinho P.M., Wu M., Xie G., Haft D.H., Sait M., Badger J., Barabote R.D., Bradley B., Brettin T.S., Brinkac L.M., Bruce D., Creasy T., Daugherty S.C., Davidsen T.M. , DeBoy R.T., Detter J.C., Dodson R.J., Durkin A.S., Ganapathy A., Gwinn-Giglio M., Han C.S., Khouri H., Kiss H., Kothari S.P., Madupu R., Nelson K.E., Nelson W.C., Paulsen I., Penn K., Ren Q., Rosovitz M.J., Selengut J.D., Shrivastava S., Sullivan S.A., Tapia R., Thompson L.S., Watkins K.L., Yang Q., Yu C., Zafar N., Zhou L., Kuske C.R. Appl. Environ. Microbiol. 75:2046-2056(2009) [PubMed: 19201974] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Ellin345.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000360 Genomic DNA. Translation: ABF42873.1.
RefSeq	YP_592947.1. NC_008009.1.
3D structure databases
ProteinModelPortal	Q1IJS7.
SMR	Q1IJS7. Positions 3-140.
ModBase	Search...
Protein-protein interaction databases
STRING	Q1IJS7.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	4071025.
GenomeReviews	Gene locus Acid345_3873 in contig CP000360_GR.
KEGG	aba:Acid345_3873.
NMPDR	fig|204669.6.peg.3859.
PATRIC	31985002. VBICanKor57425_4129.
Phylogenomic databases
eggNOG	COG0105.
HOGENOM	HBG445152.
OMA	SEQEAGQ.
PhylomeDB	Q1IJS7.
Enzyme and pathway databases
BioCyc	ABAC204669:ACID345_3873-MONOMER.
Family and domain databases
HAMAP	MF_00451. NDP_kinase. [Tree]
InterPro	IPR001564. Nucleoside_diP_kinase. [Graphical view]
Gene3D	G3DSA:3.30.70.141. NDK. 1 hit.
KO	K00940.
PANTHER	PTHR11349. Nuc_diP_kinase_core. 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. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

NDK_KORVE

Accession

Primary (citable) accession number: Q1IJS7

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 12, 2006
Last sequence update:	June 13, 2006
Last modified:	January 25, 2012
This is version 37 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program