A5FY40 (NDK_ACICJ) 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:	Acry_1311

Organism

Acidiphilium cryptum (strain JF-5) [Complete proteome] [HAMAP]

Taxonomic identifier

349163 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhodospirillales › Acetobacteraceae › Acidiphilium

Protein attributes

Sequence length	140 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
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 – 140	140	Nucleoside diphosphate kinase HAMAP MF_00451		PRO_1000026201
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)
	A5FY40 [UniParc]. Last modified June 12, 2007. Version 1. Checksum: C417BE6605C363F6	FASTA	140	15,153
	10 20 30 40 50 60 MATERTLSII KPDATRRNLT GRINAKFEEA GLRIVAQKRI RLTKDQAEAF YGVHKERPFF 70 80 90 100 110 120 AGLVSFMTSG PVVVQVLEGD DAVARNRAIM GATDPRKAEA GTIRAEFAED IEANSVHGSD 130 140 AADTAAQEIA FFFAGVEIVG

References

[1]

"Complete sequence of chromosome of Acidiphilium cryptum JF-5." US DOE Joint Genome Institute Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Sims D., Brettin T., Bruce D., Han C., Schmutz J., Larimer F., Land M. , Hauser L., Kyrpides N., Kim E., Magnuson T., Richardson P. Submitted (MAY-2007) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: JF-5.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000697 Genomic DNA. Translation: ABQ30522.1.
RefSeq	YP_001234441.1. NC_009484.1.
3D structure databases
ProteinModelPortal	A5FY40.
SMR	A5FY40. Positions 2-139.
ModBase	Search...
Protein-protein interaction databases
STRING	A5FY40.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	5160323.
GenomeReviews	Gene locus Acry_1311 in contig CP000697_GR.
KEGG	acr:Acry_1311.
PATRIC	20647634. VBIAciCry6074_1805.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0105.
HOGENOM	HBG445152.
OMA	IRAEFAE.
Enzyme and pathway databases
BioCyc	ACRY349163:ACRY_1311-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_ACICJ

Accession

Primary (citable) accession number: A5FY40

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	June 12, 2007
Last modified:	January 25, 2012
This is version 32 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program