Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help

2DYA

Crystal structure of complex between Adenine nucleotide and nucleoside diphosphate kinase

Functional Information from GO Data
ChainGOidnamespacecontents
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
A0009142biological_processnucleoside triphosphate biosynthetic process
A0016301molecular_functionkinase activity
A0046872molecular_functionmetal ion 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
B0009142biological_processnucleoside triphosphate biosynthetic process
B0016301molecular_functionkinase activity
B0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MG A 601
ChainResidue
AADP501
AHOH718
AHOH720
AHOH721

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MG B 602
ChainResidue
BADP502
BHOH738
BHOH743
BHOH752

site_idAC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL B 701
ChainResidue
BALA96
BALA102
BALA103
BGLY95

site_idAC4
Number of Residues3
DetailsBINDING SITE FOR RESIDUE CL A 702
ChainResidue
AGLY95
AALA96
AALA103

site_idAC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL A 703
ChainResidue
AARG150
AALA151
AALA152
AHOH827

site_idAC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL B 704
ChainResidue
BARG150
BALA151
BALA152
BHOH815

site_idAC7
Number of Residues17
DetailsBINDING SITE FOR RESIDUE ADP A 501
ChainResidue
ALYS15
AHIS58
APHE63
ALEU67
AARG91
ATHR97
AARG108
AILE119
AASN121
AMG601
AHOH719
AHOH724
AHOH749
AHOH788
AHOH792
AHOH846
AHOH852

site_idAC8
Number of Residues13
DetailsBINDING SITE FOR RESIDUE ADP B 502
ChainResidue
BLYS15
BHIS58
BPHE63
BLEU67
BARG91
BTHR97
BARG108
BILE119
BASN121
BMG602
BHOH721
BHOH729
BHOH785

Functional Information from PROSITE/UniProt
site_idPS00469
Number of Residues9
DetailsNDPK Nucleoside diphosphate kinase (NDPK) active site signature. NviHASDSK
ChainResidueDetails
AASN121-LYS129

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: Pros-phosphohistidine intermediate => ECO:0000255|HAMAP-Rule:MF_00451
ChainResidueDetails
AHIS124
BHIS124

site_idSWS_FT_FI2
Number of Residues10
DetailsBINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00451
ChainResidueDetails
ALYS15
APHE63
AARG91
ATHR97
AARG108
BLYS15
BPHE63
BARG91
BTHR97
BARG108

219869

PDB entries from 2024-05-15

PDB statisticsPDBj update infoContact PDBjnumon