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1VHA

Crystal structure of 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

Functional Information from GO Data
ChainGOidnamespacecontents
A0008299biological_processisoprenoid biosynthetic process
A0008685molecular_function2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
A0016114biological_processterpenoid biosynthetic process
A0016829molecular_functionlyase activity
A0019288biological_processisopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
A0046872molecular_functionmetal ion binding
B0008299biological_processisoprenoid biosynthetic process
B0008685molecular_function2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
B0016114biological_processterpenoid biosynthetic process
B0016829molecular_functionlyase activity
B0019288biological_processisopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
B0046872molecular_functionmetal ion binding
C0008299biological_processisoprenoid biosynthetic process
C0008685molecular_function2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
C0016114biological_processterpenoid biosynthetic process
C0016829molecular_functionlyase activity
C0019288biological_processisopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
C0046872molecular_functionmetal ion binding
D0008299biological_processisoprenoid biosynthetic process
D0008685molecular_function2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
D0016114biological_processterpenoid biosynthetic process
D0016829molecular_functionlyase activity
D0019288biological_processisopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
D0046872molecular_functionmetal ion binding
E0008299biological_processisoprenoid biosynthetic process
E0008685molecular_function2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
E0016114biological_processterpenoid biosynthetic process
E0016829molecular_functionlyase activity
E0019288biological_processisopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
E0046872molecular_functionmetal ion binding
F0008299biological_processisoprenoid biosynthetic process
F0008685molecular_function2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
F0016114biological_processterpenoid biosynthetic process
F0016829molecular_functionlyase activity
F0019288biological_processisopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
F0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues3
DetailsBINDING SITE FOR RESIDUE MN A 169
ChainResidue
AASP9
AHOH210
BHOH210

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MN B 169
ChainResidue
BASP9
BVAL10
CGLU136
CHOH216

site_idAC3
Number of Residues3
DetailsBINDING SITE FOR RESIDUE MN C 169
ChainResidue
CVAL10
AGLU136
CASP9

site_idAC4
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MN D 169
ChainResidue
DASP9
DVAL10
DHOH202
EGLU136

site_idAC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MN F 169
ChainResidue
DGLU136
FASP9
FVAL10
FHOH204

site_idAC6
Number of Residues12
DetailsBINDING SITE FOR RESIDUE POP B 170
ChainResidue
AGLY139
APHE140
AARG143
AACY170
BGLY139
BPHE140
BARG143
BACY171
CGLY139
CPHE140
CARG143
CACY170

site_idAC7
Number of Residues12
DetailsBINDING SITE FOR RESIDUE POP D 170
ChainResidue
DGLY139
DPHE140
DARG143
DACY171
EGLY139
EPHE140
EARG143
EACY169
FGLY139
FPHE140
FARG143
FACY170

site_idAC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ACY A 170
ChainResidue
APHE140
ATHR141
BPOP170
BACY171
CACY170

site_idAC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ACY B 171
ChainResidue
AACY170
BPHE140
BTHR141
BPOP170
CACY170

site_idBC1
Number of Residues7
DetailsBINDING SITE FOR RESIDUE ACY C 170
ChainResidue
AACY170
BPOP170
BACY171
CLEU138
CGLY139
CPHE140
CTHR141

site_idBC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE ACY D 171
ChainResidue
DPHE140
DTHR141
DPOP170
EACY169
FACY170

site_idBC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ACY E 169
ChainResidue
DPOP170
DACY171
EPHE140
ETHR141

site_idBC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE ACY F 170
ChainResidue
DPOP170
DACY171
FTHR135
FLEU138
FPHE140
FTHR141

Functional Information from PROSITE/UniProt
site_idPS01350
Number of Residues16
DetailsISPF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase signature. SDGDVAlHAltDAilG
ChainResidueDetails
ASER36-GLY51

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues72
DetailsBinding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00107","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues12
DetailsSite: {"description":"Transition state stabilizer","evidences":[{"source":"HAMAP-Rule","id":"MF_00107","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

239803

PDB entries from 2025-08-06

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