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4DUT

The structure of nucleoside diphosphate kinase (NDK) from Burkholderia thailandensis

Functional Information from GO Data
ChainGOidnamespacecontents
A0000166molecular_functionnucleotide binding
A0004550molecular_functionnucleoside diphosphate kinase activity
A0005524molecular_functionATP binding
A0005737cellular_componentcytoplasm
A0006183biological_processGTP biosynthetic process
A0006228biological_processUTP biosynthetic process
A0006241biological_processCTP biosynthetic process
A0009117biological_processnucleotide metabolic process
A0016301molecular_functionkinase activity
A0016740molecular_functiontransferase activity
A0046872molecular_functionmetal ion binding
B0000166molecular_functionnucleotide binding
B0004550molecular_functionnucleoside diphosphate kinase activity
B0005524molecular_functionATP binding
B0005737cellular_componentcytoplasm
B0006183biological_processGTP biosynthetic process
B0006228biological_processUTP biosynthetic process
B0006241biological_processCTP biosynthetic process
B0009117biological_processnucleotide metabolic process
B0016301molecular_functionkinase activity
B0016740molecular_functiontransferase activity
B0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE SO4 A 201
ChainResidue
ALYS11
ATYR51
AARG104
AASN114
AHIS117
AHOH319

site_idAC2
Number of Residues1
DetailsBINDING SITE FOR RESIDUE CL A 202
ChainResidue
AARG44

site_idAC3
Number of Residues7
DetailsBINDING SITE FOR RESIDUE SO4 B 201
ChainResidue
BARG104
BASN114
BVAL116
BHIS117
BHOH307
BLYS11
BTYR51

site_idAC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE SO4 B 202
ChainResidue
AARG38
AASN137
BARG38
BASN137
BHOH304

site_idAC5
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SO4 B 203
ChainResidue
AHIS41
ATYR139
BLYS49

Functional Information from PROSITE/UniProt
site_idPS00469
Number of Residues9
DetailsNDPK Nucleoside diphosphate kinase (NDPK) active site signature. NavHGSDAP
ChainResidueDetails
AASN114-PRO122

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsActive site: {"description":"Pros-phosphohistidine intermediate","evidences":[{"source":"HAMAP-Rule","id":"MF_00451","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues11
DetailsBinding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00451","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

246704

PDB entries from 2025-12-24

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