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3IEQ

Crystal structure of 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase from Burkholderia pseudomallei with cytidine

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
Functional Information from PDB Data
site_idAC1
Number of Residues13
DetailsBINDING SITE FOR RESIDUE CTN A 901
ChainResidue
AALA102
AHOH254
CASP58
CGLY60
CARG61
APRO105
ALYS106
ALEU107
AALA108
AALA133
ALYS134
AHOH211
AHOH221

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN A 163
ChainResidue
AASP10
AHIS12
AHIS44
AHOH223

site_idAC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CL A 164
ChainResidue
AGLN103
ATHR135
AASN136
AGLU137
ALYS138
AGLY143

site_idAC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 163
ChainResidue
AHOH228
BGLU149
BHOH208
BHOH214
CHOH226
CHOH227

site_idAC5
Number of Residues15
DetailsBINDING SITE FOR RESIDUE CTN B 901
ChainResidue
AASP58
AGLY60
AARG61
AASP65
BALA102
BPRO105
BLYS106
BLEU107
BALA108
BALA133
BLYS134
BTHR135
BHOH200
BHOH250
BHOH251

site_idAC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN B 164
ChainResidue
BASP10
BHIS12
BHIS44
CHOH224

site_idAC7
Number of Residues13
DetailsBINDING SITE FOR RESIDUE CTN C 901
ChainResidue
BASP58
BGLY60
BARG61
CALA102
CPRO105
CLYS106
CLEU107
CALA108
CALA133
CLYS134
CHOH211
CHOH257
CHOH258

site_idAC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN C 163
ChainResidue
CASP10
CHIS12
CHIS44
CHOH225

Functional Information from PROSITE/UniProt
site_idPS01350
Number of Residues16
DetailsISPF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase signature. SDADVLlHAitDAlfG
ChainResidueDetails
ASER37-GLY52

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues21
DetailsBINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00107
ChainResidueDetails
AASP10
BHIS36
BHIS44
BASP58
BPHE63
BARG144
CASP10
CHIS12
CHIS36
CHIS44
CASP58
AHIS12
CPHE63
CARG144
AHIS36
AHIS44
AASP58
APHE63
AARG144
BASP10
BHIS12

site_idSWS_FT_FI2
Number of Residues12
DetailsBINDING:
ChainResidueDetails
AASP67
AASP40
BASP40
CASP40
AALA102
AALA133
BASP67
BALA102
BALA133
CASP67
CALA102
CALA133

site_idSWS_FT_FI3
Number of Residues6
DetailsSITE: Transition state stabilizer => ECO:0000255|HAMAP-Rule:MF_00107
ChainResidueDetails
AHIS36
ATHR135
BHIS36
BTHR135
CHIS36
CTHR135

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PDB entries from 2024-11-06

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