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

4F7I

Structure of Isopropylmalate dehydrogenase from Thermus thermophilus in complex with IPM, Mn and NADH

Functional Information from GO Data
ChainGOidnamespacecontents
A0000287molecular_functionmagnesium ion binding
A0003862molecular_function3-isopropylmalate dehydrogenase activity
A0005737cellular_componentcytoplasm
A0009098biological_processL-leucine biosynthetic process
A0016491molecular_functionoxidoreductase activity
A0016616molecular_functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
A0042802molecular_functionidentical protein binding
A0046872molecular_functionmetal ion binding
A0051287molecular_functionNAD binding
B0000287molecular_functionmagnesium ion binding
B0003862molecular_function3-isopropylmalate dehydrogenase activity
B0005737cellular_componentcytoplasm
B0009098biological_processL-leucine biosynthetic process
B0016491molecular_functionoxidoreductase activity
B0016616molecular_functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
B0042802molecular_functionidentical protein binding
B0046872molecular_functionmetal ion binding
B0051287molecular_functionNAD binding
C0000287molecular_functionmagnesium ion binding
C0003862molecular_function3-isopropylmalate dehydrogenase activity
C0005737cellular_componentcytoplasm
C0009098biological_processL-leucine biosynthetic process
C0016491molecular_functionoxidoreductase activity
C0016616molecular_functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
C0042802molecular_functionidentical protein binding
C0046872molecular_functionmetal ion binding
C0051287molecular_functionNAD binding
D0000287molecular_functionmagnesium ion binding
D0003862molecular_function3-isopropylmalate dehydrogenase activity
D0005737cellular_componentcytoplasm
D0009098biological_processL-leucine biosynthetic process
D0016491molecular_functionoxidoreductase activity
D0016616molecular_functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
D0042802molecular_functionidentical protein binding
D0046872molecular_functionmetal ion binding
D0051287molecular_functionNAD binding
Functional Information from PDB Data
site_idAC1
Number of Residues13
DetailsBINDING SITE FOR RESIDUE IPM A 800
ChainResidue
AARG94
BLYS185
BVAL188
BASP217
BHOH2013
AARG104
AARG132
ATYR139
AASP241
ANAD900
AMN999
AHOH2002
AHOH2022

site_idAC2
Number of Residues34
DetailsBINDING SITE FOR RESIDUE NAD A 900
ChainResidue
AILE11
ASER71
AVAL72
AGLY73
AGLY74
AGLU87
ALEU90
ALEU254
AGLU270
AHIS273
AGLY274
ASER275
AALA276
APRO277
AASP278
AILE279
AASN286
AIPM800
AK1001
AGOL1003
AGOL1005
AHOH2004
AHOH2006
AHOH2022
AHOH2023
AHOH2033
AHOH2044
AHOH2076
AHOH2086
AHOH2100
BASN187
BTYR215
BALA218
BHIS222

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MPO A 950
ChainResidue
ALYS175
AARG176
AGLU299
AHIS300
AGOL1009

site_idAC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MN A 999
ChainResidue
AASP241
AIPM800
AHOH2001
AHOH2002
BASP217

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K A 1001
ChainResidue
AGLY70
ASER71
AGLU270
APRO271
AHIS273
ANAD900

site_idAC6
Number of Residues3
DetailsBINDING SITE FOR RESIDUE K A 1002
ChainResidue
AGLU62
AALA64
ATHR266

site_idAC7
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL A 1003
ChainResidue
AGLY73
AGLY74
ATRP77
AASP78
AARG85
AGLU87
ANAD900
BTYR215

site_idAC8
Number of Residues11
DetailsBINDING SITE FOR RESIDUE GOL A 1004
ChainResidue
AGLU155
ATYR157
AVAL183
AVAL191
AGLY192
ATRP195
ATHR235
AGLY236
APHE239
AHOH2018
AHOH2068

site_idAC9
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL A 1005
ChainResidue
ASER253
ALEU254
AASP326
ANAD900
AHOH2100
BMET221
BARG225
BHOH2038

site_idBC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 1006
ChainResidue
ALYS95
AGLY136
AGLY137
AARG156
AGLU161
AHOH2039

site_idBC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL A 1007
ChainResidue
ALYS107
AVAL108
APHE109
ALEU112
APRO251
ALEU319
AGOL1008
AHOH2064

site_idBC3
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL A 1008
ChainResidue
APRO105
AALA106
ALYS107
APHE109
ALEU256
AGOL1007
AGOL1009

site_idBC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 1009
ChainResidue
AALA295
AMET296
AGLU299
AGLU312
AMPO950
AGOL1008

site_idBC5
Number of Residues2
DetailsBINDING SITE FOR RESIDUE GOL A 1010
ChainResidue
AGLY263
AGOL1011

site_idBC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE GOL A 1011
ChainResidue
AARG164
AARG167
AGLU171
AGOL1010

site_idBC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EOH A 1012
ChainResidue
AMET221
AARG225
BSER253
BLEU254

site_idBC8
Number of Residues12
DetailsBINDING SITE FOR RESIDUE IPM B 800
ChainResidue
ALYS185
AASP217
AHOH2013
BLEU91
BARG94
BARG104
BARG132
BTYR139
BASP241
BNAD900
BMN999
BHOH2021

site_idBC9
Number of Residues31
DetailsBINDING SITE FOR RESIDUE NAD B 900
ChainResidue
AASN187
ATYR215
AALA218
AHOH2061
BILE11
BSER71
BVAL72
BGLY73
BGLY74
BGLU87
BLEU90
BLEU254
BGLU270
BVAL272
BHIS273
BGLY274
BSER275
BALA276
BPRO277
BASP278
BILE279
BASN286
BIPM800
BK1001
BGOL1004
BHOH2009
BHOH2016
BHOH2021
BHOH2035
BHOH2044
BHOH2046

site_idCC1
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MN B 999
ChainResidue
AASP217
BASP241
BIPM800
BHOH2001
BHOH2002

site_idCC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K B 1001
ChainResidue
BGLY70
BSER71
BGLU270
BPRO271
BHIS273
BNAD900

site_idCC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE K B 1002
ChainResidue
BGLU62
BALA64
BTHR266
BHOH2050
BHOH2051

site_idCC4
Number of Residues9
DetailsBINDING SITE FOR RESIDUE GOL B 1003
ChainResidue
BGLU155
BTYR157
BVAL183
BTRP195
BTHR235
BGLY236
BPHE239
BHOH2037
BHOH2098

site_idCC5
Number of Residues10
DetailsBINDING SITE FOR RESIDUE GOL B 1004
ChainResidue
ATYR215
BGLY73
BGLY74
BTRP77
BASP78
BARG85
BGLU87
BNAD900
BHOH2093
BHOH2108

site_idCC6
Number of Residues9
DetailsBINDING SITE FOR RESIDUE GOL B 1005
ChainResidue
APRO143
AARG156
BASP47
BLYS76
BTRP77
BLEU80
BPRO143
BTRP152
BHOH2024

site_idCC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL B 1006
ChainResidue
BLYS107
BVAL108
BPHE109
BPRO251
BGOL1007
BHOH2057

site_idCC8
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL B 1007
ChainResidue
BPRO105
BALA106
BLYS107
BLEU256
BLEU257
BLEU292
BGOL1006
BGOL1008

site_idCC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL B 1008
ChainResidue
BPRO105
BALA295
BMET296
BGLU312
BGOL1007

site_idDC1
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EOH B 1009
ChainResidue
BPRO7
BPRO13
BGLU17

site_idDC2
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL B 1010
ChainResidue
BGLU200
BGLY203
BTYR206
BVAL209
BLEU211
BHOH2080
BHOH2117

site_idDC3
Number of Residues15
DetailsBINDING SITE FOR RESIDUE IPM C 800
ChainResidue
CLEU90
CLEU91
CARG94
CARG104
CARG132
CTYR139
CASP241
CNAD900
CMN999
CHOH2001
CHOH2014
DLYS185
DVAL188
DASP217
DHOH2007

site_idDC4
Number of Residues31
DetailsBINDING SITE FOR RESIDUE NAD C 900
ChainResidue
CILE11
CSER71
CVAL72
CGLY73
CGLY74
CGLU87
CLEU90
CLEU254
CGLU270
CVAL272
CHIS273
CGLY274
CSER275
CALA276
CPRO277
CASP278
CILE279
CASN286
CIPM800
CK1001
CGOL1004
CHOH2004
CHOH2011
CHOH2014
CHOH2031
CHOH2056
CHOH2057
DASN187
DTYR215
DALA218
DHOH2029

site_idDC5
Number of Residues7
DetailsBINDING SITE FOR RESIDUE MPO C 950
ChainResidue
CLEU103
CLYS175
CARG176
CMET296
CGLU299
CHIS300
CGOL1005

site_idDC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MN C 999
ChainResidue
CASP241
CIPM800
CHOH2001
CHOH2002
DASP217

site_idDC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K C 1001
ChainResidue
CGLY70
CSER71
CGLU270
CPRO271
CHIS273
CNAD900

site_idDC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE K C 1002
ChainResidue
CGLU62
CALA64
CTHR266
CHOH2098

site_idDC9
Number of Residues11
DetailsBINDING SITE FOR RESIDUE GOL C 1003
ChainResidue
CGLU155
CTYR157
CVAL183
CVAL191
CGLY192
CTRP195
CTHR235
CGLY236
CPHE239
CHOH2043
CHOH2044

site_idEC1
Number of Residues10
DetailsBINDING SITE FOR RESIDUE GOL C 1004
ChainResidue
CGLY73
CGLY74
CTRP77
CASP78
CARG85
CGLU87
CNAD900
CHOH2087
CHOH2118
DTYR215

site_idEC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL C 1005
ChainResidue
CMET296
CGLU299
CGLU312
CMPO950
CGOL1006

site_idEC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL C 1006
ChainResidue
CPRO105
CLYS107
CPHE109
CPRO258
CGOL1005
CGOL1007

site_idEC4
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL C 1007
ChainResidue
CLYS107
CVAL108
CPHE109
CPRO251
CLEU292
CGOL1006
CHOH2075

site_idEC5
Number of Residues1
DetailsBINDING SITE FOR RESIDUE GOL C 1018
ChainResidue
CGOL1008

site_idEC6
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL C 1008
ChainResidue
CGLU171
CARG174
CGLY205
CILE284
CSER330
CGOL1018
CHOH2109

site_idEC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EOH C 1009
ChainResidue
CGLU148
CHOH2110
DLYS159
DPHE194

site_idEC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EOH C 1010
ChainResidue
CGLY79
CLEU80
CARG85
CHOH2118

site_idEC9
Number of Residues14
DetailsBINDING SITE FOR RESIDUE IPM D 800
ChainResidue
CLYS185
CASP217
CHOH2017
DLEU90
DLEU91
DARG94
DARG104
DARG132
DTYR139
DASP241
DNAD900
DMN999
DHOH2002
DHOH2016

site_idFC1
Number of Residues30
DetailsBINDING SITE FOR RESIDUE NAD D 900
ChainResidue
CASN187
CTYR215
CALA218
CHOH2027
DILE11
DSER71
DVAL72
DGLY73
DGLY74
DGLU87
DLEU90
DLEU254
DGLU270
DHIS273
DGLY274
DSER275
DALA276
DPRO277
DASP278
DILE279
DASN286
DIPM800
DK1001
DGOL1004
DHOH2003
DHOH2006
DHOH2016
DHOH2021
DHOH2048
DHOH2067

site_idFC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE MPO D 950
ChainResidue
DLEU103
DALA172
DLYS175
DARG176
DMET296
DGLU299
DHIS300
DGOL1007

site_idFC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MN D 999
ChainResidue
CASP217
DASP241
DIPM800
DHOH2001
DHOH2002

site_idFC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K D 1001
ChainResidue
DGLY70
DSER71
DGLU270
DPRO271
DHIS273
DNAD900

site_idFC5
Number of Residues11
DetailsBINDING SITE FOR RESIDUE GOL D 1003
ChainResidue
DGLU155
DTYR157
DVAL183
DVAL191
DGLY192
DTRP195
DTHR235
DGLY236
DPHE239
DHOH2017
DHOH2036

site_idFC6
Number of Residues9
DetailsBINDING SITE FOR RESIDUE GOL D 1004
ChainResidue
CTYR215
DGLY73
DGLY74
DTRP77
DASP78
DARG85
DGLU87
DNAD900
DHOH2066

site_idFC7
Number of Residues10
DetailsBINDING SITE FOR RESIDUE GOL D 1005
ChainResidue
CASP47
CLYS76
CTRP77
CLEU80
CPRO143
CTRP152
DPRO143
DTHR154
DARG156
DHOH2023

site_idFC8
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL D 1006
ChainResidue
DLYS107
DVAL108
DPHE109
DLEU112
DPRO251
DLEU319
DGOL1008
DHOH2057

site_idFC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE GOL D 1007
ChainResidue
DMET296
DGLU299
DMPO950
DGOL1008

site_idGC1
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL D 1008
ChainResidue
DPRO105
DALA106
DLYS107
DLEU256
DLEU257
DLEU292
DGOL1006
DGOL1007

site_idGC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EOH D 1009
ChainResidue
CSER253
CLEU254
DMET221
DARG225

site_idGC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EOH D 1010
ChainResidue
CMET221
DSER253
DLEU254
DHOH2081
DHOH2082

Functional Information from PROSITE/UniProt
site_idPS00470
Number of Residues20
DetailsIDH_IMDH Isocitrate and isopropylmalate dehydrogenases signature. NIFGDIlSDlaSvlp.GSLGL
ChainResidueDetails
AASN237-LEU256

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues8
DetailsBINDING: BINDING => ECO:0000269|PubMed:7881901
ChainResidueDetails
AGLY74
AGLY274
BGLY74
BGLY274
CGLY74
CGLY274
DGLY74
DGLY274

site_idSWS_FT_FI2
Number of Residues24
DetailsBINDING: BINDING => ECO:0000250
ChainResidueDetails
AARG94
BASP217
BASP241
BASP245
CARG94
CARG104
CARG132
CASP217
CASP241
CASP245
DARG94
AARG104
DARG104
DARG132
DASP217
DASP241
DASP245
AARG132
AASP217
AASP241
AASP245
BARG94
BARG104
BARG132

site_idSWS_FT_FI3
Number of Residues4
DetailsSITE: Important for catalysis
ChainResidueDetails
ATYR139
BTYR139
CTYR139
DTYR139

site_idSWS_FT_FI4
Number of Residues4
DetailsSITE: Important for catalysis => ECO:0000250
ChainResidueDetails
ALYS185
BLYS185
CLYS185
DLYS185

222926

PDB entries from 2024-07-24

PDB statisticsPDBj update infoContact PDBjnumon