Structure of PDB 2dxd Chain A

Receptor sequence
>2dxdA (length=154) Species: 70601 (Pyrococcus horikoshii OT3) [Search protein sequence]
SETERTLVIIKPDAVVRGLIGEIISRFEKKGLKIVGMKMIWIDRELAEKH
YEEHREKPFFKALIDYITKTPVVVMVLEGRYAVEVVRKMAGATDPKDAAP
GTIRGDFGLEVSDAICNVIHASDSKESAEREISLFFKPEELFEYPRAADW
FYKK
3D structure
PDB2dxd Crystal structure of nucleoside diphosphate kinase in complex with ATP analog
ChainA
Resolution1.77 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) K15 Y55 N121 H124 E135
Catalytic site (residue number reindexed from 1) K11 Y51 N117 H120 E131
Enzyme Commision number 2.7.4.6: nucleoside-diphosphate kinase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 ANP A H58 F63 I119 H54 F59 I115
Gene Ontology
Molecular Function
GO:0004550 nucleoside diphosphate kinase activity
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0046872 metal ion binding
Biological Process
GO:0006183 GTP biosynthetic process
GO:0006228 UTP biosynthetic process
GO:0006241 CTP biosynthetic process
GO:0009117 nucleotide metabolic process
GO:0009142 nucleoside triphosphate biosynthetic process
GO:0016310 phosphorylation
Cellular Component
GO:0005737 cytoplasm

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Cellular Component
External links
PDB RCSB:2dxd, PDBe:2dxd, PDBj:2dxd
PDBsum2dxd
PubMed
UniProtO58429|NDK_PYRHO Nucleoside diphosphate kinase (Gene Name=ndk)

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