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3PCC

STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE COMPLEXED WITH 4-HYDROXYBENZOATE

Functional Information from GO Data
ChainGOidnamespacecontents
A0003824molecular_functioncatalytic activity
A0005506molecular_functioniron ion binding
A0006725biological_processobsolete cellular aromatic compound metabolic process
A0008199molecular_functionferric iron binding
A0016491molecular_functionoxidoreductase activity
A0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
A0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
A0019439biological_processobsolete aromatic compound catabolic process
A0042952biological_processbeta-ketoadipate pathway
A0051213molecular_functiondioxygenase activity
B0003824molecular_functioncatalytic activity
B0005506molecular_functioniron ion binding
B0006725biological_processobsolete cellular aromatic compound metabolic process
B0008199molecular_functionferric iron binding
B0016491molecular_functionoxidoreductase activity
B0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
B0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
B0019439biological_processobsolete aromatic compound catabolic process
B0042952biological_processbeta-ketoadipate pathway
B0051213molecular_functiondioxygenase activity
C0003824molecular_functioncatalytic activity
C0005506molecular_functioniron ion binding
C0006725biological_processobsolete cellular aromatic compound metabolic process
C0008199molecular_functionferric iron binding
C0016491molecular_functionoxidoreductase activity
C0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
C0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
C0019439biological_processobsolete aromatic compound catabolic process
C0042952biological_processbeta-ketoadipate pathway
C0051213molecular_functiondioxygenase activity
D0003824molecular_functioncatalytic activity
D0005506molecular_functioniron ion binding
D0006725biological_processobsolete cellular aromatic compound metabolic process
D0008199molecular_functionferric iron binding
D0016491molecular_functionoxidoreductase activity
D0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
D0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
D0019439biological_processobsolete aromatic compound catabolic process
D0042952biological_processbeta-ketoadipate pathway
D0051213molecular_functiondioxygenase activity
E0003824molecular_functioncatalytic activity
E0005506molecular_functioniron ion binding
E0006725biological_processobsolete cellular aromatic compound metabolic process
E0008199molecular_functionferric iron binding
E0016491molecular_functionoxidoreductase activity
E0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
E0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
E0019439biological_processobsolete aromatic compound catabolic process
E0042952biological_processbeta-ketoadipate pathway
E0051213molecular_functiondioxygenase activity
F0003824molecular_functioncatalytic activity
F0005506molecular_functioniron ion binding
F0006725biological_processobsolete cellular aromatic compound metabolic process
F0008199molecular_functionferric iron binding
F0016491molecular_functionoxidoreductase activity
F0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
F0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
F0019439biological_processobsolete aromatic compound catabolic process
F0042952biological_processbeta-ketoadipate pathway
F0051213molecular_functiondioxygenase activity
M0003824molecular_functioncatalytic activity
M0005506molecular_functioniron ion binding
M0006725biological_processobsolete cellular aromatic compound metabolic process
M0008199molecular_functionferric iron binding
M0016491molecular_functionoxidoreductase activity
M0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
M0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
M0019439biological_processobsolete aromatic compound catabolic process
M0019619biological_process3,4-dihydroxybenzoate catabolic process
M0042952biological_processbeta-ketoadipate pathway
M0046872molecular_functionmetal ion binding
M0051213molecular_functiondioxygenase activity
N0003824molecular_functioncatalytic activity
N0005506molecular_functioniron ion binding
N0006725biological_processobsolete cellular aromatic compound metabolic process
N0008199molecular_functionferric iron binding
N0016491molecular_functionoxidoreductase activity
N0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
N0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
N0019439biological_processobsolete aromatic compound catabolic process
N0019619biological_process3,4-dihydroxybenzoate catabolic process
N0042952biological_processbeta-ketoadipate pathway
N0046872molecular_functionmetal ion binding
N0051213molecular_functiondioxygenase activity
O0003824molecular_functioncatalytic activity
O0005506molecular_functioniron ion binding
O0006725biological_processobsolete cellular aromatic compound metabolic process
O0008199molecular_functionferric iron binding
O0016491molecular_functionoxidoreductase activity
O0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
O0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
O0019439biological_processobsolete aromatic compound catabolic process
O0019619biological_process3,4-dihydroxybenzoate catabolic process
O0042952biological_processbeta-ketoadipate pathway
O0046872molecular_functionmetal ion binding
O0051213molecular_functiondioxygenase activity
P0003824molecular_functioncatalytic activity
P0005506molecular_functioniron ion binding
P0006725biological_processobsolete cellular aromatic compound metabolic process
P0008199molecular_functionferric iron binding
P0016491molecular_functionoxidoreductase activity
P0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
P0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
P0019439biological_processobsolete aromatic compound catabolic process
P0019619biological_process3,4-dihydroxybenzoate catabolic process
P0042952biological_processbeta-ketoadipate pathway
P0046872molecular_functionmetal ion binding
P0051213molecular_functiondioxygenase activity
Q0003824molecular_functioncatalytic activity
Q0005506molecular_functioniron ion binding
Q0006725biological_processobsolete cellular aromatic compound metabolic process
Q0008199molecular_functionferric iron binding
Q0016491molecular_functionoxidoreductase activity
Q0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
Q0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
Q0019439biological_processobsolete aromatic compound catabolic process
Q0019619biological_process3,4-dihydroxybenzoate catabolic process
Q0042952biological_processbeta-ketoadipate pathway
Q0046872molecular_functionmetal ion binding
Q0051213molecular_functiondioxygenase activity
R0003824molecular_functioncatalytic activity
R0005506molecular_functioniron ion binding
R0006725biological_processobsolete cellular aromatic compound metabolic process
R0008199molecular_functionferric iron binding
R0016491molecular_functionoxidoreductase activity
R0016702molecular_functionoxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
R0018578molecular_functionprotocatechuate 3,4-dioxygenase activity
R0019439biological_processobsolete aromatic compound catabolic process
R0019619biological_process3,4-dihydroxybenzoate catabolic process
R0042952biological_processbeta-ketoadipate pathway
R0046872molecular_functionmetal ion binding
R0051213molecular_functiondioxygenase activity
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FE M 600
ChainResidue
MTYR408
MTYR447
MHIS460
MHIS462
MPHB550
MHOH743

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FE N 600
ChainResidue
NTYR408
NTYR447
NHIS460
NHIS462
NPHB550
NHOH854

site_idAC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FE O 600
ChainResidue
OTYR408
OTYR447
OHIS460
OHIS462
OPHB550
OHOH840

site_idAC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FE P 600
ChainResidue
PTYR408
PTYR447
PHIS460
PHIS462
PPHB550
PHOH777

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FE Q 600
ChainResidue
QTYR408
QTYR447
QHIS460
QHIS462
QPHB550
QHOH769

site_idAC6
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FE R 600
ChainResidue
RTYR408
RTYR447
RHIS460
RHIS462
RPHB550
RHOH899

site_idAC7
Number of Residues5
DetailsBINDING SITE FOR RESIDUE BME M 601
ChainResidue
MHIS361
MCYS429
MLEU430
MSER438
MHOH693

site_idAC8
Number of Residues12
DetailsBINDING SITE FOR RESIDUE PHB M 550
ChainResidue
APRO15
AARG133
MTYR324
MTYR447
MTRP449
MARG457
MHIS460
MHIS462
MILE491
MFE600
MHOH743
MHOH744

site_idAC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PHB M 551
ChainResidue
MARG333
MHOH682
MHOH745
OILE328

site_idACA
Number of Residues26
DetailsSITE "ACA" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS A AND M.
ChainResidue
ATHR12
MTYR408
MTYR447
MTRP449
MARG450
MARG457
MHIS460
MHIS462
MGLN477
MILE491
MFE600
AALA13
AHOH606
MHOH626
MHOH633
MHOH634
MPHB550
MHOH743
MHOH744
AGLY14
APRO15
ATYR16
AARG133
AGLY134
MTYR324
MTHR326

site_idACB
Number of Residues26
DetailsSITE "ACB" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS B AND N.
ChainResidue
BTHR12
BALA13
BGLY14
BPRO15
BTYR16
BARG133
BGLY134
NTYR324
NTHR326
NTYR408
NTYR447
NTRP449
NARG450
NARG457
NHIS460
NHIS462
NGLN477
NILE491
NFE600
BHOH606
NHOH728
NHOH736
NHOH737
NPHB550
NHOH854
NHOH855

site_idACC
Number of Residues26
DetailsSITE "ACC" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS C AND O.
ChainResidue
CTHR12
CALA13
CGLY14
CPRO15
CTYR16
CARG133
CGLY134
OTYR324
OTHR326
OTYR408
OTYR447
OTRP449
OARG450
OARG457
OHIS460
OHIS462
OGLN477
OILE491
OFE600
CHOH606
OHOH643
OHOH659
OHOH660
OPHB550
OHOH840
OHOH841

site_idACD
Number of Residues26
DetailsSITE "ACD" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS D AND P.
ChainResidue
PHOH671
PHOH672
PPHB550
PHOH777
PHOH778
DTHR12
DALA13
DGLY14
DPRO15
DTYR16
DARG133
DGLY134
PTYR324
PTHR326
PTYR408
PTYR447
PTRP449
PARG450
PARG457
PHIS460
PHIS462
PGLN477
PILE491
PFE600
DHOH606
PHOH663

site_idACE
Number of Residues26
DetailsSITE "ACE" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS E AND Q.
ChainResidue
ETHR12
EALA13
EGLY14
EPRO15
ETYR16
EARG133
EGLY134
QTYR324
QTHR326
QTYR408
QTYR447
QTRP449
QARG450
QARG457
QHIS460
QHIS462
QGLN477
QILE491
QFE600
EHOH606
QHOH646
QHOH654
QHOH655
QPHB550
QHOH769
QHOH770

site_idACF
Number of Residues26
DetailsSITE "ACF" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS F AND R.
ChainResidue
FTHR12
FALA13
FGLY14
FPRO15
FTYR16
FARG133
FGLY134
RTYR324
RTHR326
RTYR408
RTYR447
RTRP449
RARG450
RARG457
RHIS460
RHIS462
RGLN477
RILE491
RFE600
FHOH606
RHOH770
RHOH778
RHOH779
RPHB550
RHOH899
RHOH900

site_idBC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE BME N 601
ChainResidue
NHIS361
NCYS429
NSER438
NHOH796

site_idBC2
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PHB N 550
ChainResidue
BPRO15
NTYR324
NTYR447
NTRP449
NARG457
NHIS460
NHIS462
NILE491
NFE600
NHOH854
NHOH855

site_idBC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PHB N 551
ChainResidue
MILE328
MHOH749
NARG333
NHOH784

site_idBC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE BME O 601
ChainResidue
OHIS361
OCYS429
OLEU430
OSER438
OHOH750

site_idBC5
Number of Residues12
DetailsBINDING SITE FOR RESIDUE PHB O 550
ChainResidue
CPRO15
CARG133
OTYR324
OTYR447
OTRP449
OARG457
OHIS460
OHIS462
OILE491
OFE600
OHOH840
OHOH841

site_idBC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PHB O 551
ChainResidue
NILE328
OARG333
OHOH732
OHOH844

site_idBC7
Number of Residues5
DetailsBINDING SITE FOR RESIDUE BME P 601
ChainResidue
PHIS361
PCYS429
PLEU430
PSER438
PHOH730

site_idBC8
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PHB P 550
ChainResidue
DPRO15
PTYR324
PTYR447
PTRP449
PARG457
PHIS460
PHIS462
PILE491
PFE600
PHOH777
PHOH778

site_idBC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PHB P 551
ChainResidue
PARG333
PHOH719
PHOH779
RILE328

site_idCC1
Number of Residues5
DetailsBINDING SITE FOR RESIDUE BME Q 601
ChainResidue
QHIS361
QCYS429
QLEU430
QSER438
QHOH712

site_idCC2
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PHB Q 550
ChainResidue
EPRO15
QTYR324
QTYR447
QTRP449
QARG457
QHIS460
QHIS462
QILE491
QFE600
QHOH769
QHOH770

site_idCC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PHB Q 551
ChainResidue
PILE328
QARG333
QHOH700
QHOH771

site_idCC4
Number of Residues4
DetailsBINDING SITE FOR RESIDUE BME R 601
ChainResidue
RHIS361
RCYS429
RSER438
RHOH841

site_idCC5
Number of Residues11
DetailsBINDING SITE FOR RESIDUE PHB R 550
ChainResidue
FPRO15
RTYR324
RTYR447
RTRP449
RARG457
RHIS460
RHIS462
RILE491
RFE600
RHOH899
RHOH900

site_idCC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PHB R 551
ChainResidue
QILE328
RARG333
RHOH829
RHOH901

site_idVEA
Number of Residues29
DetailsSITE "VEA" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS A AND M.
ChainResidue
ATYR79
AVAL114
AASN115
AASN116
AALA117
AALA118
AMET122
AHIS125
AASN127
AARG142
AVAL157
MASP304
MARG307
MILE339
MPRO340
MGLN341
MSER342
MILE343
MSER344
MGLU345
AHOH646
AHOH655
MHOH639
AHOH673
MHOH646
AHOH683
MHOH663
AHOH725
AHOH795

site_idVEB
Number of Residues29
DetailsSITE "VEB" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS B AND N.
ChainResidue
BTYR79
BVAL114
BASN115
BASN116
BALA117
BALA118
BMET122
BHIS125
BASN127
BARG142
BVAL157
NASP304
NARG307
NILE339
NPRO340
NGLN341
NSER342
NILE343
NSER344
NGLU345
BHOH646
BHOH655
NHOH741
BHOH673
NHOH749
BHOH683
NHOH764
BHOH725
NHOH825

site_idVEC
Number of Residues29
DetailsSITE "VEC" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS C AND O.
ChainResidue
CTYR79
CVAL114
CASN115
CASN116
CALA117
CALA118
CMET122
CHIS125
CASN127
CARG142
CVAL157
OASP304
OARG307
OILE339
OPRO340
OGLN341
OSER342
OILE343
OSER344
OGLU345
CHOH646
OHOH655
OHOH666
CHOH673
OHOH681
CHOH683
OHOH707
CHOH725
OHOH795

site_idVED
Number of Residues29
DetailsSITE "VED" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS D AND P.
ChainResidue
DTYR79
DVAL114
DASN115
DASN116
DALA117
DALA118
DMET122
DHIS125
DASN127
DARG142
DVAL157
PASP304
PARG307
PILE339
PPRO340
PGLN341
PSER342
PILE343
PSER344
PGLU345
DHOH646
PHOH669
PHOH676
DHOH673
PHOH683
DHOH683
PHOH699
DHOH725
PHOH755

site_idVEE
Number of Residues29
DetailsSITE "VEE" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS E AND Q.
ChainResidue
ETYR79
EVAL114
EASN115
EASN116
EALA117
EALA118
EMET122
EHIS125
EASN127
EARG142
EVAL157
QASP304
QARG307
QILE339
QPRO340
QGLN341
QSER342
QILE343
QSER344
QGLU345
EHOH646
EHOH655
EHOH666
EHOH673
QHOH665
EHOH683
QHOH679
EHOH725
QHOH740

site_idVEF
Number of Residues29
DetailsSITE "VEF" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS F AND R.
ChainResidue
FTYR79
FVAL114
FASN115
FASN116
FALA117
FALA118
FMET122
FHIS125
FASN127
FARG142
FVAL157
RASP304
RARG307
RILE339
RPRO340
RGLN341
RSER342
RILE343
RSER344
RGLU345
FHOH646
FHOH655
RHOH783
FHOH673
RHOH791
RHOH793
RHOH809
RHOH823
RHOH870

Functional Information from PROSITE/UniProt
site_idPS00083
Number of Residues29
DetailsINTRADIOL_DIOXYGENAS Intradiol ring-cleavage dioxygenases signature. VaGrVvdqyGkpVpntlVEMwqanagGrY
ChainResidueDetails
MVAL380-TYR408
ALEU51-TYR79

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues24
DetailsBINDING: BINDING => ECO:0000269|PubMed:7990141
ChainResidueDetails
MARG409
OPRO448
OILE461
OPHE463
PARG409
PPRO448
PILE461
PPHE463
QARG409
QPRO448
QILE461
MPRO448
QPHE463
RARG409
RPRO448
RILE461
RPHE463
MILE461
MPHE463
NARG409
NPRO448
NILE461
NPHE463
OARG409

Catalytic Information from CSA
site_idMCSA1
Number of Residues5
DetailsM-CSA 936
ChainResidueDetails
MARG409metal ligand
MPRO448metal ligand, proton shuttle (general acid/base)
MPRO458electrostatic stabiliser
MILE461metal ligand
MPHE463metal ligand

site_idMCSA2
Number of Residues5
DetailsM-CSA 936
ChainResidueDetails
NARG409metal ligand
NPRO448metal ligand, proton shuttle (general acid/base)
NPRO458electrostatic stabiliser
NILE461metal ligand
NPHE463metal ligand

site_idMCSA3
Number of Residues5
DetailsM-CSA 936
ChainResidueDetails
OARG409metal ligand
OPRO448metal ligand, proton shuttle (general acid/base)
OPRO458electrostatic stabiliser
OILE461metal ligand
OPHE463metal ligand

site_idMCSA4
Number of Residues5
DetailsM-CSA 936
ChainResidueDetails
PARG409metal ligand
PPRO448metal ligand, proton shuttle (general acid/base)
PPRO458electrostatic stabiliser
PILE461metal ligand
PPHE463metal ligand

site_idMCSA5
Number of Residues5
DetailsM-CSA 936
ChainResidueDetails
QARG409metal ligand
QPRO448metal ligand, proton shuttle (general acid/base)
QPRO458electrostatic stabiliser
QILE461metal ligand
QPHE463metal ligand

site_idMCSA6
Number of Residues5
DetailsM-CSA 936
ChainResidueDetails
RARG409metal ligand
RPRO448metal ligand, proton shuttle (general acid/base)
RPRO458electrostatic stabiliser
RILE461metal ligand
RPHE463metal ligand

218853

PDB entries from 2024-04-24

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