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2A30

Crystal structure of human deoxycytidine kinase in complex with deoxycytidine

Functional Information from GO Data
ChainGOidnamespacecontents
A0000166molecular_functionnucleotide binding
A0004136molecular_functiondeoxyadenosine kinase activity
A0004137molecular_functiondeoxycytidine kinase activity
A0004138molecular_functiondeoxyguanosine kinase activity
A0005515molecular_functionprotein binding
A0005524molecular_functionATP binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005737cellular_componentcytoplasm
A0005739cellular_componentmitochondrion
A0005829cellular_componentcytosol
A0006139biological_processnucleobase-containing compound metabolic process
A0006220biological_processpyrimidine nucleotide metabolic process
A0008144molecular_functionobsolete drug binding
A0009224biological_processCMP biosynthetic process
A0016301molecular_functionkinase activity
A0016740molecular_functiontransferase activity
A0019136molecular_functiondeoxynucleoside kinase activity
A0042803molecular_functionprotein homodimerization activity
A0043771molecular_functioncytidine kinase activity
A0106383biological_processdAMP salvage
A1901135biological_processcarbohydrate derivative metabolic process
A1901293biological_processnucleoside phosphate biosynthetic process
B0000166molecular_functionnucleotide binding
B0004136molecular_functiondeoxyadenosine kinase activity
B0004137molecular_functiondeoxycytidine kinase activity
B0004138molecular_functiondeoxyguanosine kinase activity
B0005515molecular_functionprotein binding
B0005524molecular_functionATP binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005737cellular_componentcytoplasm
B0005739cellular_componentmitochondrion
B0005829cellular_componentcytosol
B0006139biological_processnucleobase-containing compound metabolic process
B0006220biological_processpyrimidine nucleotide metabolic process
B0008144molecular_functionobsolete drug binding
B0009224biological_processCMP biosynthetic process
B0016301molecular_functionkinase activity
B0016740molecular_functiontransferase activity
B0019136molecular_functiondeoxynucleoside kinase activity
B0042803molecular_functionprotein homodimerization activity
B0043771molecular_functioncytidine kinase activity
B0106383biological_processdAMP salvage
B1901135biological_processcarbohydrate derivative metabolic process
B1901293biological_processnucleoside phosphate biosynthetic process
C0000166molecular_functionnucleotide binding
C0004136molecular_functiondeoxyadenosine kinase activity
C0004137molecular_functiondeoxycytidine kinase activity
C0004138molecular_functiondeoxyguanosine kinase activity
C0005515molecular_functionprotein binding
C0005524molecular_functionATP binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005737cellular_componentcytoplasm
C0005739cellular_componentmitochondrion
C0005829cellular_componentcytosol
C0006139biological_processnucleobase-containing compound metabolic process
C0006220biological_processpyrimidine nucleotide metabolic process
C0008144molecular_functionobsolete drug binding
C0009224biological_processCMP biosynthetic process
C0016301molecular_functionkinase activity
C0016740molecular_functiontransferase activity
C0019136molecular_functiondeoxynucleoside kinase activity
C0042803molecular_functionprotein homodimerization activity
C0043771molecular_functioncytidine kinase activity
C0106383biological_processdAMP salvage
C1901135biological_processcarbohydrate derivative metabolic process
C1901293biological_processnucleoside phosphate biosynthetic process
D0000166molecular_functionnucleotide binding
D0004136molecular_functiondeoxyadenosine kinase activity
D0004137molecular_functiondeoxycytidine kinase activity
D0004138molecular_functiondeoxyguanosine kinase activity
D0005515molecular_functionprotein binding
D0005524molecular_functionATP binding
D0005634cellular_componentnucleus
D0005654cellular_componentnucleoplasm
D0005737cellular_componentcytoplasm
D0005739cellular_componentmitochondrion
D0005829cellular_componentcytosol
D0006139biological_processnucleobase-containing compound metabolic process
D0006220biological_processpyrimidine nucleotide metabolic process
D0008144molecular_functionobsolete drug binding
D0009224biological_processCMP biosynthetic process
D0016301molecular_functionkinase activity
D0016740molecular_functiontransferase activity
D0019136molecular_functiondeoxynucleoside kinase activity
D0042803molecular_functionprotein homodimerization activity
D0043771molecular_functioncytidine kinase activity
D0106383biological_processdAMP salvage
D1901135biological_processcarbohydrate derivative metabolic process
D1901293biological_processnucleoside phosphate biosynthetic process
Functional Information from PDB Data
site_idAC1
Number of Residues1
DetailsBINDING SITE FOR RESIDUE CA A 261
ChainResidue
AASN60

site_idAC2
Number of Residues1
DetailsBINDING SITE FOR RESIDUE CA C 261
ChainResidue
CASN60

site_idAC3
Number of Residues9
DetailsBINDING SITE FOR RESIDUE DCZ A 302
ChainResidue
APHE137
AGLU197
AGLU53
ATRP58
ATYR86
APHE96
AGLN97
AARG128
AASP133

site_idAC4
Number of Residues9
DetailsBINDING SITE FOR RESIDUE DCZ B 402
ChainResidue
BGLU53
BTRP58
BTYR86
BPHE96
BGLN97
BARG128
BASP133
BPHE137
BGLU197

site_idAC5
Number of Residues12
DetailsBINDING SITE FOR RESIDUE DCZ C 502
ChainResidue
CILE30
CGLU53
CTRP58
CTYR86
CPHE96
CGLN97
CARG128
CASP133
CPHE137
CGLU197
CHOH503
CHOH509

site_idAC6
Number of Residues11
DetailsBINDING SITE FOR RESIDUE DCZ D 602
ChainResidue
DGLU53
DTRP58
DMET85
DTYR86
DPHE96
DGLN97
DARG128
DASP133
DPHE137
DGLU197
DHOH603

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsACT_SITE: Proton acceptor => ECO:0000255
ChainResidueDetails
AGLU145
BGLU145
CGLU145
DGLU145

site_idSWS_FT_FI2
Number of Residues36
DetailsBINDING:
ChainResidueDetails
AALA31
BALA31
BALA56
BARG104
BLYS115
BCYS146
BGLU151
BGLU206
BTRP215
BSER258
CALA31
AALA56
CALA56
CARG104
CLYS115
CCYS146
CGLU151
CGLU206
CTRP215
CSER258
DALA31
DALA56
AARG104
DARG104
DLYS115
DCYS146
DGLU151
DGLU206
DTRP215
DSER258
ALYS115
ACYS146
AGLU151
AGLU206
ATRP215
ASER258

site_idSWS_FT_FI3
Number of Residues8
DetailsMOD_RES: Phosphoserine; by CK1 => ECO:0000305|PubMed:20637175
ChainResidueDetails
AALA14
AGLY18
BALA14
BGLY18
CALA14
CGLY18
DALA14
DGLY18

site_idSWS_FT_FI4
Number of Residues4
DetailsMOD_RES: Phosphothreonine; by CK1 => ECO:0000305|PubMed:20637175
ChainResidueDetails
AGLU90
BGLU90
CGLU90
DGLU90

site_idSWS_FT_FI5
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:20637175, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:23186163
ChainResidueDetails
ATRP92
BTRP92
CTRP92
DTRP92

Catalytic Information from CSA
site_idCSA1
Number of Residues2
DetailsAnnotated By Reference To The Literature 2ocp
ChainResidueDetails
AGLU53
AARG128

site_idCSA2
Number of Residues2
DetailsAnnotated By Reference To The Literature 2ocp
ChainResidueDetails
BGLU53
BARG128

site_idCSA3
Number of Residues2
DetailsAnnotated By Reference To The Literature 2ocp
ChainResidueDetails
CGLU53
CARG128

site_idCSA4
Number of Residues2
DetailsAnnotated By Reference To The Literature 2ocp
ChainResidueDetails
DGLU53
DARG128

237423

PDB entries from 2025-06-11

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