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3C6M

Crystal structure of human spermine synthase in complex with spermine and 5-methylthioadenosine

Functional Information from GO Data
ChainGOidnamespacecontents
A0005829cellular_componentcytosol
A0006555biological_processmethionine metabolic process
A0006595biological_processpolyamine metabolic process
A0006596biological_processpolyamine biosynthetic process
A0006597biological_processspermine biosynthetic process
A0008215biological_processspermine metabolic process
A0016740molecular_functiontransferase activity
A0016768molecular_functionspermine synthase activity
A0070062cellular_componentextracellular exosome
B0005829cellular_componentcytosol
B0006555biological_processmethionine metabolic process
B0006595biological_processpolyamine metabolic process
B0006596biological_processpolyamine biosynthetic process
B0006597biological_processspermine biosynthetic process
B0008215biological_processspermine metabolic process
B0016740molecular_functiontransferase activity
B0016768molecular_functionspermine synthase activity
B0070062cellular_componentextracellular exosome
C0005829cellular_componentcytosol
C0006555biological_processmethionine metabolic process
C0006595biological_processpolyamine metabolic process
C0006596biological_processpolyamine biosynthetic process
C0006597biological_processspermine biosynthetic process
C0008215biological_processspermine metabolic process
C0016740molecular_functiontransferase activity
C0016768molecular_functionspermine synthase activity
C0070062cellular_componentextracellular exosome
D0005829cellular_componentcytosol
D0006555biological_processmethionine metabolic process
D0006595biological_processpolyamine metabolic process
D0006596biological_processpolyamine biosynthetic process
D0006597biological_processspermine biosynthetic process
D0008215biological_processspermine metabolic process
D0016740molecular_functiontransferase activity
D0016768molecular_functionspermine synthase activity
D0070062cellular_componentextracellular exosome
Functional Information from PDB Data
site_idAC1
Number of Residues15
DetailsBINDING SITE FOR RESIDUE SPM A 501
ChainResidue
ATRP124
ALEU277
ATYR351
AGLU353
ATRP355
AHOH571
AHOH576
APRO125
ATYR134
AASP167
AVAL168
AASN169
ATYR177
AASP201
AASP276

site_idAC2
Number of Residues13
DetailsBINDING SITE FOR RESIDUE SPM B 501
ChainResidue
BASP167
BVAL168
BASN169
BTYR177
BASP201
BASP276
BLEU277
BGLN315
BTYR351
BGLU353
BTRP355
BMTA401
BHOH524

site_idAC3
Number of Residues15
DetailsBINDING SITE FOR RESIDUE SPM C 501
ChainResidue
CASP167
CVAL168
CASN169
CTYR177
CASP201
CASP276
CLEU277
CGLN315
CTYR351
CGLU353
CTRP355
CMTA401
CHOH527
CHOH536
CHOH563

site_idAC4
Number of Residues13
DetailsBINDING SITE FOR RESIDUE SPM D 501
ChainResidue
DTRP124
DTHR126
DTYR134
DASP167
DVAL168
DASN169
DTYR177
DASP201
DASP276
DGLN315
DTYR351
DGLU353
DTRP355

site_idAC5
Number of Residues19
DetailsBINDING SITE FOR RESIDUE MTA A 401
ChainResidue
AGLN148
ALEU162
ALEU164
AASN169
AGLY198
AGLY199
AGLY200
AASP201
AVAL219
AGLU220
AILE221
AASP222
AVAL225
AASP255
ACYS256
AASP276
ALEU277
ATHR278
AILE282

site_idAC6
Number of Residues19
DetailsBINDING SITE FOR RESIDUE MTA B 401
ChainResidue
BGLN148
BLEU162
BLEU164
BASN169
BGLY198
BGLY199
BASP201
BVAL219
BGLU220
BILE221
BASP222
BVAL225
BASP255
BCYS256
BASP276
BLEU277
BTHR278
BILE282
BSPM501

site_idAC7
Number of Residues19
DetailsBINDING SITE FOR RESIDUE MTA C 401
ChainResidue
CGLY199
CGLY200
CASP201
CVAL219
CGLU220
CILE221
CVAL225
CASP255
CCYS256
CASP276
CLEU277
CTHR278
CILE282
CSPM501
CGLN148
CLEU162
CLEU164
CASN169
CGLY198

site_idAC8
Number of Residues17
DetailsBINDING SITE FOR RESIDUE MTA D 401
ChainResidue
DGLN148
DLEU164
DASN169
DGLY198
DGLY199
DGLY200
DASP201
DVAL219
DGLU220
DILE221
DVAL225
DASP255
DCYS256
DASP276
DLEU277
DTHR278
DILE282

Functional Information from PROSITE/UniProt
site_idPS01330
Number of Residues14
DetailsPABS_1 Polyamine biosynthesis (PABS) domain signature. VLILGGGdGgiLcE
ChainResidueDetails
AVAL194-GLU207

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsActive site: {"description":"Proton acceptor","evidences":[{"source":"PROSITE-ProRule","id":"PRU00354","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"18367445","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues28
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"18367445","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

239149

PDB entries from 2025-07-23

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