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1PVN

The crystal structure of the complex between IMP dehydrogenase catalytic domain and a transition state analogue MZP

Replaces:  1MWF
Functional Information from GO Data
ChainGOidnamespacecontents
A0003824molecular_functioncatalytic activity
A0003938molecular_functionIMP dehydrogenase activity
A0006164biological_processpurine nucleotide biosynthetic process
A0016491molecular_functionoxidoreductase activity
B0003824molecular_functioncatalytic activity
B0003938molecular_functionIMP dehydrogenase activity
B0006164biological_processpurine nucleotide biosynthetic process
B0016491molecular_functionoxidoreductase activity
C0003824molecular_functioncatalytic activity
C0003938molecular_functionIMP dehydrogenase activity
C0006164biological_processpurine nucleotide biosynthetic process
C0016491molecular_functionoxidoreductase activity
D0003824molecular_functioncatalytic activity
D0003938molecular_functionIMP dehydrogenase activity
D0006164biological_processpurine nucleotide biosynthetic process
D0016491molecular_functionoxidoreductase activity
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K A 981
ChainResidue
AGLU485
AGLY486
AGLY487
DGLY314
DGLY316
DCYS319

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K B 982
ChainResidue
BGLU485
BGLY486
BGLY487
AGLY314
AGLY316
ACYS319

site_idAC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K D 983
ChainResidue
CGLY314
CGLY316
CCYS319
DGLU485
DGLY486
DGLY487

site_idAC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE K C 984
ChainResidue
CASP264
CPHE266
DGLY20
DSER22
DASN460

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE K C 985
ChainResidue
BGLY314
BGLY316
BCYS319
CGLU485
CGLY486
CGLY487

site_idAC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE K B 986
ChainResidue
BASP264
BPHE266
CGLY20
CSER22
CASN460

site_idAC7
Number of Residues5
DetailsBINDING SITE FOR RESIDUE K A 987
ChainResidue
AASP264
APHE266
BGLY20
BSER22
BASN460

site_idAC8
Number of Residues5
DetailsBINDING SITE FOR RESIDUE K A 988
ChainResidue
AGLY20
ASER22
AASN460
DASP264
DPHE266

site_idAC9
Number of Residues27
DetailsBINDING SITE FOR RESIDUE MZP A 971
ChainResidue
AALA57
AMET59
AGLY316
ASER317
AILE318
ACYS319
AASP358
AGLY359
AGLY360
AMET379
ALEU380
AGLY381
AARG382
ATYR405
AGLY407
AGLU408
AGLY409
AARG418
ATYR419
AGLU431
AGLY432
AHOH1004
AHOH1010
AHOH1012
AHOH1028
AHOH1029
AHOH1053

site_idBC1
Number of Residues29
DetailsBINDING SITE FOR RESIDUE MZP B 972
ChainResidue
BHOH1124
BALA57
BMET59
BGLY316
BSER317
BILE318
BCYS319
BASP358
BGLY359
BGLY360
BMET379
BLEU380
BGLY381
BARG382
BTYR405
BGLY407
BGLU408
BGLY409
BARG418
BTYR419
BGLU431
BGLY432
BHOH997
BHOH1000
BHOH1008
BHOH1023
BHOH1036
BHOH1041
BHOH1046

site_idBC2
Number of Residues27
DetailsBINDING SITE FOR RESIDUE MZP C 973
ChainResidue
CALA57
CMET59
CGLY316
CSER317
CILE318
CCYS319
CASP358
CGLY359
CGLY360
CMET379
CLEU380
CGLY381
CARG382
CTYR405
CGLY407
CGLU408
CGLY409
CARG418
CTYR419
CGLU431
CGLY432
CHOH998
CHOH1005
CHOH1007
CHOH1014
CHOH1015
CHOH1039

site_idBC3
Number of Residues27
DetailsBINDING SITE FOR RESIDUE MZP D 974
ChainResidue
DALA57
DMET59
DGLY316
DSER317
DILE318
DCYS319
DASP358
DGLY359
DGLY360
DMET379
DLEU380
DGLY381
DARG382
DTYR405
DGLY407
DGLU408
DGLY409
DARG418
DTYR419
DGLU431
DGLY432
DHOH1001
DHOH1005
DHOH1017
DHOH1022
DHOH1037
DHOH1051

site_idBC4
Number of Residues8
DetailsBINDING SITE FOR RESIDUE TRS B 991
ChainResidue
BASP364
BTYR383
BARG386
BASN446
BALA449
BSER450
BLYS453
BHOH1192

site_idBC5
Number of Residues7
DetailsBINDING SITE FOR RESIDUE TRS C 992
ChainResidue
BALA2
CVAL339
CASN343
CHOH997
CHOH999
CHOH1051
CHOH1063

site_idBC6
Number of Residues9
DetailsBINDING SITE FOR RESIDUE TRS A 993
ChainResidue
AVAL339
AALA340
AASN343
AHOH1001
AHOH1018
AHOH1040
AHOH1093
AHOH1097
DALA2

site_idBC7
Number of Residues9
DetailsBINDING SITE FOR RESIDUE TRS B 994
ChainResidue
AALA2
AHOH1008
BVAL339
BASN343
BHOH999
BHOH1075
BHOH1077
BHOH1176
BHOH1233

site_idBC8
Number of Residues7
DetailsBINDING SITE FOR RESIDUE TRS D 995
ChainResidue
CALA2
CHOH1040
DVAL339
DASN343
DHOH998
DHOH1011
DHOH1085

site_idBC9
Number of Residues7
DetailsBINDING SITE FOR RESIDUE TRS A 996
ChainResidue
ATYR15
AILE336
ALEU477
AHOH1062
DHOH999
DHOH1069
DHOH1084

Functional Information from PROSITE/UniProt
site_idPS00487
Number of Residues13
DetailsIMP_DH_GMP_RED IMP dehydrogenase / GMP reductase signature. IKIGIGgGSICiT
ChainResidueDetails
AILE309-THR321

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsACT_SITE: Thioimidate intermediate => ECO:0000255|HAMAP-Rule:MF_03156, ECO:0000269|PubMed:12235158, ECO:0000269|PubMed:12549902
ChainResidueDetails
ACYS319
BCYS319
CCYS319
DCYS319

site_idSWS_FT_FI2
Number of Residues4
DetailsACT_SITE: Proton acceptor => ECO:0000255|HAMAP-Rule:MF_03156
ChainResidueDetails
AARG418
BARG418
CARG418
DARG418

site_idSWS_FT_FI3
Number of Residues24
DetailsBINDING: in other chain => ECO:0000269|PubMed:12549902
ChainResidueDetails
AGLY20
BGLY316
BCYS319
BASN460
CGLY20
CSER22
CGLY314
CGLY316
CCYS319
CASN460
DGLY20
ASER22
DSER22
DGLY314
DGLY316
DCYS319
DASN460
AGLY314
AGLY316
ACYS319
AASN460
BGLY20
BSER22
BGLY314

site_idSWS_FT_FI4
Number of Residues28
DetailsBINDING:
ChainResidueDetails
AASP261
BSER317
BASP358
BGLY381
BTYR405
BGLU431
CASP261
CGLY312
CSER317
CASP358
CGLY381
AGLY312
CTYR405
CGLU431
DASP261
DGLY312
DSER317
DASP358
DGLY381
DTYR405
DGLU431
ASER317
AASP358
AGLY381
ATYR405
AGLU431
BASP261
BGLY312

site_idSWS_FT_FI5
Number of Residues20
DetailsBINDING: BINDING => ECO:0000269|PubMed:12549902
ChainResidueDetails
AASP264
BGLY487
CASP264
CPHE266
CGLU485
CGLY486
CGLY487
DASP264
DPHE266
DGLU485
DGLY486
APHE266
DGLY487
AGLU485
AGLY486
AGLY487
BASP264
BPHE266
BGLU485
BGLY486

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PDB entries from 2024-07-17

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