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1XQI

Crystal Structure Analysis of an NDP kinase from Pyrobaculum aerophilum

Functional Information from GO Data
ChainGOidnamespacecontents
A0004550molecular_functionnucleoside diphosphate kinase activity
A0005737cellular_componentcytoplasm
A0009142biological_processnucleoside triphosphate biosynthetic process
B0004550molecular_functionnucleoside diphosphate kinase activity
B0005737cellular_componentcytoplasm
B0009142biological_processnucleoside triphosphate biosynthetic process
C0004550molecular_functionnucleoside diphosphate kinase activity
C0005737cellular_componentcytoplasm
C0009142biological_processnucleoside triphosphate biosynthetic process
Functional Information from PDB Data
site_idAC1
Number of Residues5
DetailsBINDING SITE FOR RESIDUE TRS A 200
ChainResidue
ALYS23
ATYR63
AASN169
AHIS172
APGE500

site_idAC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE TRS B 300
ChainResidue
BVAL171
BHIS172
BPGE600
BHOH613
BLYS23
BTYR63
BTHR138
BASN169

site_idAC3
Number of Residues8
DetailsBINDING SITE FOR RESIDUE TRS C 400
ChainResidue
CLYS23
CTYR63
CTHR138
CASN169
CHIS172
CPGE700
CHOH730
CHOH755

site_idAC4
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PGE A 500
ChainResidue
ATYR63
APRO64
ATRP69
AHIS172
AALA173
ASER174
AASP175
AGLU179
AGLU183
ATRS200
AHOH505

site_idAC5
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PGE B 600
ChainResidue
BTYR63
BPRO64
BTRP69
BHIS172
BALA173
BSER174
BASP175
BGLU179
BGLU183
BTRS300
BHOH653

site_idAC6
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PGE C 700
ChainResidue
CTYR63
CPRO64
CTRP69
CHIS172
CALA173
CSER174
CASP175
CGLU179
CGLU183
CTRS400
CHOH749

Functional Information from PROSITE/UniProt
site_idPS00469
Number of Residues9
DetailsNDPK Nucleoside diphosphate kinase (NDPK) active site signature. NlvHASDSP
ChainResidueDetails
AASN169-PRO177

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues96
DetailsRegion: {"description":"Insert"}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues3
DetailsActive site: {"description":"Pros-phosphohistidine intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU10030","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues15
DetailsBinding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

Catalytic Information from CSA
site_idCSA1
Number of Residues2
DetailsAnnotated By Reference To The Literature 1nsp
ChainResidueDetails
AASN169
ALYS23

site_idCSA2
Number of Residues2
DetailsAnnotated By Reference To The Literature 1nsp
ChainResidueDetails
BASN169
BLYS23

site_idCSA3
Number of Residues2
DetailsAnnotated By Reference To The Literature 1nsp
ChainResidueDetails
CASN169
CLYS23

site_idCSA4
Number of Residues2
DetailsAnnotated By Reference To The Literature 1nsp
ChainResidueDetails
ATYR63
ALYS23

site_idCSA5
Number of Residues2
DetailsAnnotated By Reference To The Literature 1nsp
ChainResidueDetails
BTYR63
BLYS23

site_idCSA6
Number of Residues2
DetailsAnnotated By Reference To The Literature 1nsp
ChainResidueDetails
CTYR63
CLYS23

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PDB entries from 2026-04-01

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