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1RBL

STRUCTURE DETERMINATION AND REFINEMENT OF RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE(SLASH)OXYGENASE FROM SYNECHOCOCCUS PCC6301

Functional Information from GO Data
ChainGOidnamespacecontents
A0000287molecular_functionmagnesium ion binding
A0004497molecular_functionmonooxygenase activity
A0005515molecular_functionprotein binding
A0009853biological_processphotorespiration
A0015977biological_processcarbon fixation
A0015979biological_processphotosynthesis
A0016491molecular_functionoxidoreductase activity
A0016829molecular_functionlyase activity
A0016984molecular_functionribulose-bisphosphate carboxylase activity
A0019253biological_processreductive pentose-phosphate cycle
A0031470cellular_componentcarboxysome
A0046872molecular_functionmetal ion binding
B0000287molecular_functionmagnesium ion binding
B0004497molecular_functionmonooxygenase activity
B0005515molecular_functionprotein binding
B0009853biological_processphotorespiration
B0015977biological_processcarbon fixation
B0015979biological_processphotosynthesis
B0016491molecular_functionoxidoreductase activity
B0016829molecular_functionlyase activity
B0016984molecular_functionribulose-bisphosphate carboxylase activity
B0019253biological_processreductive pentose-phosphate cycle
B0031470cellular_componentcarboxysome
B0046872molecular_functionmetal ion binding
C0000287molecular_functionmagnesium ion binding
C0004497molecular_functionmonooxygenase activity
C0005515molecular_functionprotein binding
C0009853biological_processphotorespiration
C0015977biological_processcarbon fixation
C0015979biological_processphotosynthesis
C0016491molecular_functionoxidoreductase activity
C0016829molecular_functionlyase activity
C0016984molecular_functionribulose-bisphosphate carboxylase activity
C0019253biological_processreductive pentose-phosphate cycle
C0031470cellular_componentcarboxysome
C0046872molecular_functionmetal ion binding
D0000287molecular_functionmagnesium ion binding
D0004497molecular_functionmonooxygenase activity
D0005515molecular_functionprotein binding
D0009853biological_processphotorespiration
D0015977biological_processcarbon fixation
D0015979biological_processphotosynthesis
D0016491molecular_functionoxidoreductase activity
D0016829molecular_functionlyase activity
D0016984molecular_functionribulose-bisphosphate carboxylase activity
D0019253biological_processreductive pentose-phosphate cycle
D0031470cellular_componentcarboxysome
D0046872molecular_functionmetal ion binding
E0000287molecular_functionmagnesium ion binding
E0004497molecular_functionmonooxygenase activity
E0005515molecular_functionprotein binding
E0009853biological_processphotorespiration
E0015977biological_processcarbon fixation
E0015979biological_processphotosynthesis
E0016491molecular_functionoxidoreductase activity
E0016829molecular_functionlyase activity
E0016984molecular_functionribulose-bisphosphate carboxylase activity
E0019253biological_processreductive pentose-phosphate cycle
E0031470cellular_componentcarboxysome
E0046872molecular_functionmetal ion binding
F0000287molecular_functionmagnesium ion binding
F0004497molecular_functionmonooxygenase activity
F0005515molecular_functionprotein binding
F0009853biological_processphotorespiration
F0015977biological_processcarbon fixation
F0015979biological_processphotosynthesis
F0016491molecular_functionoxidoreductase activity
F0016829molecular_functionlyase activity
F0016984molecular_functionribulose-bisphosphate carboxylase activity
F0019253biological_processreductive pentose-phosphate cycle
F0031470cellular_componentcarboxysome
F0046872molecular_functionmetal ion binding
G0000287molecular_functionmagnesium ion binding
G0004497molecular_functionmonooxygenase activity
G0005515molecular_functionprotein binding
G0009853biological_processphotorespiration
G0015977biological_processcarbon fixation
G0015979biological_processphotosynthesis
G0016491molecular_functionoxidoreductase activity
G0016829molecular_functionlyase activity
G0016984molecular_functionribulose-bisphosphate carboxylase activity
G0019253biological_processreductive pentose-phosphate cycle
G0031470cellular_componentcarboxysome
G0046872molecular_functionmetal ion binding
H0000287molecular_functionmagnesium ion binding
H0004497molecular_functionmonooxygenase activity
H0005515molecular_functionprotein binding
H0009853biological_processphotorespiration
H0015977biological_processcarbon fixation
H0015979biological_processphotosynthesis
H0016491molecular_functionoxidoreductase activity
H0016829molecular_functionlyase activity
H0016984molecular_functionribulose-bisphosphate carboxylase activity
H0019253biological_processreductive pentose-phosphate cycle
H0031470cellular_componentcarboxysome
H0046872molecular_functionmetal ion binding
I0009853biological_processphotorespiration
I0015977biological_processcarbon fixation
I0015979biological_processphotosynthesis
I0016984molecular_functionribulose-bisphosphate carboxylase activity
I0019253biological_processreductive pentose-phosphate cycle
I0031470cellular_componentcarboxysome
J0009853biological_processphotorespiration
J0015977biological_processcarbon fixation
J0015979biological_processphotosynthesis
J0016984molecular_functionribulose-bisphosphate carboxylase activity
J0019253biological_processreductive pentose-phosphate cycle
J0031470cellular_componentcarboxysome
K0009853biological_processphotorespiration
K0015977biological_processcarbon fixation
K0015979biological_processphotosynthesis
K0016984molecular_functionribulose-bisphosphate carboxylase activity
K0019253biological_processreductive pentose-phosphate cycle
K0031470cellular_componentcarboxysome
L0009853biological_processphotorespiration
L0015977biological_processcarbon fixation
L0015979biological_processphotosynthesis
L0016984molecular_functionribulose-bisphosphate carboxylase activity
L0019253biological_processreductive pentose-phosphate cycle
L0031470cellular_componentcarboxysome
M0009853biological_processphotorespiration
M0015977biological_processcarbon fixation
M0015979biological_processphotosynthesis
M0016984molecular_functionribulose-bisphosphate carboxylase activity
M0019253biological_processreductive pentose-phosphate cycle
M0031470cellular_componentcarboxysome
N0009853biological_processphotorespiration
N0015977biological_processcarbon fixation
N0015979biological_processphotosynthesis
N0016984molecular_functionribulose-bisphosphate carboxylase activity
N0019253biological_processreductive pentose-phosphate cycle
N0031470cellular_componentcarboxysome
O0009853biological_processphotorespiration
O0015977biological_processcarbon fixation
O0015979biological_processphotosynthesis
O0016984molecular_functionribulose-bisphosphate carboxylase activity
O0019253biological_processreductive pentose-phosphate cycle
O0031470cellular_componentcarboxysome
P0009853biological_processphotorespiration
P0015977biological_processcarbon fixation
P0015979biological_processphotosynthesis
P0016984molecular_functionribulose-bisphosphate carboxylase activity
P0019253biological_processreductive pentose-phosphate cycle
P0031470cellular_componentcarboxysome
Functional Information from PDB Data
site_id1P
Number of Residues4
DetailsTHE BINDING SITE OF THE FIRST PHOSPHATE GROUP OF THE CAP
ChainResidue
MPHE65
AGLY404
AGLY381
AGLY403

site_id1P2
Number of Residues4
Details
ChainResidue
IPHE65
BGLY404
BGLY381
BGLY403

site_id1P3
Number of Residues4
Details
ChainResidue
NPHE65
CGLY404
CGLY381
CGLY403

site_id1P4
Number of Residues4
Details
ChainResidue
JPHE65
DGLY404
DGLY381
DGLY403

site_id1P5
Number of Residues4
Details
ChainResidue
OPHE65
EGLY404
EGLY381
EGLY403

site_id1P6
Number of Residues4
Details
ChainResidue
KPHE65
FGLY404
FGLY381
FGLY403

site_id1P7
Number of Residues4
Details
ChainResidue
PPHE65
GGLY404
GGLY381
GGLY403

site_id1P8
Number of Residues4
Details
ChainResidue
LPHE65
HGLY404
HGLY381
HGLY403

site_id2P
Number of Residues2
DetailsTHE BINDING SITE OF THE 2ND PHOSPHATE OF CAP
ChainResidue
AARG295
AHIS327

site_id2P2
Number of Residues2
Details
ChainResidue
BARG295
BHIS327

site_id2P3
Number of Residues2
Details
ChainResidue
CARG295
CHIS327

site_id2P4
Number of Residues2
Details
ChainResidue
DARG295
DHIS327

site_id2P5
Number of Residues2
Details
ChainResidue
EARG295
EHIS327

site_id2P6
Number of Residues2
Details
ChainResidue
FARG295
FHIS327

site_id2P7
Number of Residues2
Details
ChainResidue
GARG295
GHIS327

site_id2P8
Number of Residues2
Details
ChainResidue
HHIS327
HARG295

site_idAC1
Number of Residues23
DetailsBINDING SITE FOR RESIDUE CAP A 476
ChainResidue
ATHR173
ALYS175
ALYS177
AHIS294
AARG295
AHIS327
ALYS334
ALEU335
ASER379
AGLY380
AGLY381
AGLY403
AGLY404
BTHR65
BTRP66
BASN123
AHOH514
AHOH515
AHOH520
AHOH521
AHOH569
AHOH570
AHOH571

site_idAC2
Number of Residues18
DetailsBINDING SITE FOR RESIDUE CAP B 476
ChainResidue
ATHR65
ATRP66
AASN123
BTHR173
BLYS175
BLYS177
BHIS294
BARG295
BHIS327
BLYS334
BLEU335
BSER379
BGLY380
BGLY381
BGLY403
BGLY404
AHOH502
AHOH503

site_idAC3
Number of Residues16
DetailsBINDING SITE FOR RESIDUE CAP C 476
ChainResidue
CTHR173
CLYS175
CLYS177
CHIS294
CARG295
CHIS327
CLYS334
CLEU335
CSER379
CGLY380
CGLY381
CGLY403
CGLY404
DTHR65
DTRP66
DASN123

site_idAC4
Number of Residues16
DetailsBINDING SITE FOR RESIDUE CAP D 476
ChainResidue
CTHR65
CTRP66
CASN123
DTHR173
DLYS175
DLYS177
DHIS294
DARG295
DHIS327
DLYS334
DLEU335
DSER379
DGLY380
DGLY381
DGLY403
DGLY404

site_idAC5
Number of Residues16
DetailsBINDING SITE FOR RESIDUE CAP H 476
ChainResidue
GTHR65
GTRP66
GASN123
HTHR173
HLYS175
HLYS177
HHIS294
HARG295
HHIS327
HLYS334
HLEU335
HSER379
HGLY380
HGLY381
HGLY403
HGLY404

site_idAC6
Number of Residues16
DetailsBINDING SITE FOR RESIDUE CAP G 476
ChainResidue
GTHR173
GLYS175
GLYS177
GHIS294
GARG295
GHIS327
GLYS334
GLEU335
GSER379
GGLY380
GGLY381
GGLY403
GGLY404
HTHR65
HTRP66
HASN123

site_idAC7
Number of Residues16
DetailsBINDING SITE FOR RESIDUE CAP F 476
ChainResidue
ETHR65
ETRP66
EASN123
FTHR173
FLYS175
FLYS177
FHIS294
FARG295
FHIS327
FLYS334
FLEU335
FSER379
FGLY380
FGLY381
FGLY403
FGLY404

site_idAC8
Number of Residues16
DetailsBINDING SITE FOR RESIDUE CAP E 476
ChainResidue
ETHR173
ELYS175
ELYS177
EHIS294
EARG295
EHIS327
ELYS334
ELEU335
ESER379
EGLY380
EGLY381
EGLY403
EGLY404
FTHR65
FTRP66
FASN123

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT A 478
ChainResidue
ALYS201
AASP202
AASP203
AGLU204
AHIS294
AHIS327

site_idAD1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT D 478
ChainResidue
DLYS201
DASP202
DASP203
DGLU204
DHIS294
DHIS327

site_idAD2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT E 478
ChainResidue
ELYS201
EASP202
EASP203
EGLU204
EHIS294
EHIS327

site_idAD3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT F 478
ChainResidue
FLYS201
FASP202
FASP203
FGLU204
FHIS294
FHIS327

site_idAD4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT H 478
ChainResidue
HLYS201
HASP202
HASP203
HGLU204
HHIS294
HHIS327

site_idAD5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT G 478
ChainResidue
GLYS201
GASP202
GASP203
GGLU204
GHIS294
GHIS327

site_idAD6
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT C 478
ChainResidue
CLYS201
CASP202
CASP203
CGLU204
CHIS294
CHIS327

site_idAD7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE FMT B 478
ChainResidue
BLYS201
BASP202
BASP203
BGLU204
BHIS294
BHIS327

site_idAD8
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG A 477
ChainResidue
AASP203
AGLU204

site_idAD9
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG B 477
ChainResidue
BASP203
BGLU204

site_idAE1
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG C 477
ChainResidue
CASP203
CGLU204

site_idAE2
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG D 477
ChainResidue
DASP203
DGLU204

site_idAE3
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG E 477
ChainResidue
EASP203
EGLU204

site_idAE4
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG F 477
ChainResidue
FASP203
FGLU204

site_idAE5
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG G 477
ChainResidue
GASP203
GGLU204

site_idAE6
Number of Residues2
DetailsBINDING SITE FOR RESIDUE MG H 477
ChainResidue
HASP203
HGLU204

site_idCA2
Number of Residues4
Details
ChainResidue
BMG477
BLYS201
BHIS294
BSER379

site_idCA3
Number of Residues4
Details
ChainResidue
CMG477
CLYS201
CHIS294
CSER379

site_idCA4
Number of Residues4
Details
ChainResidue
DMG477
DLYS201
DHIS294
DSER379

site_idCA5
Number of Residues4
Details
ChainResidue
EMG477
ELYS201
EHIS294
ESER379

site_idCA6
Number of Residues4
Details
ChainResidue
FMG477
FLYS201
FHIS294
FSER379

site_idCA7
Number of Residues4
Details
ChainResidue
GMG477
GLYS201
GHIS294
GSER379

site_idCA8
Number of Residues4
Details
ChainResidue
HMG477
HLYS201
HHIS294
HSER379

site_idCAB
Number of Residues4
DetailsOTHER RESIDUES INVOLVED IN BINDING THE CAP
ChainResidue
AMG477
ALYS201
AHIS294
ASER379

site_idMG
Number of Residues3
DetailsTHE MAGNESIUM BINDING SITE
ChainResidue
ALYS201
AASP203
AGLU204

site_idMG2
Number of Residues3
Details
ChainResidue
BLYS201
BASP203
BGLU204

site_idMG3
Number of Residues3
Details
ChainResidue
CLYS201
CASP203
CGLU204

site_idMG4
Number of Residues3
Details
ChainResidue
DLYS201
DASP203
DGLU204

site_idMG5
Number of Residues3
Details
ChainResidue
ELYS201
EASP203
EGLU204

site_idMG6
Number of Residues3
Details
ChainResidue
FLYS201
FASP203
FGLU204

site_idMG7
Number of Residues3
Details
ChainResidue
GLYS201
GASP203
GGLU204

site_idMG8
Number of Residues3
Details
ChainResidue
HLYS201
HASP203
HGLU204

Functional Information from PROSITE/UniProt
site_idPS00157
Number of Residues9
DetailsRUBISCO_LARGE Ribulose bisphosphate carboxylase large chain active site. GlDFtKdDE
ChainResidueDetails
AGLY196-GLU204

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues48
DetailsMotif: {"description":"Interacts with RbcX2","evidences":[{"source":"PubMed","id":"17574029","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues16
DetailsActive site: {"description":"Proton acceptor"}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues8
DetailsBinding site: {"description":"in homodimeric partner"}
ChainResidueDetails

site_idSWS_FT_FI4
Number of Residues40
DetailsBinding site: {}
ChainResidueDetails

site_idSWS_FT_FI5
Number of Residues8
DetailsBinding site: {"description":"via carbamate group","evidences":[{"source":"PubMed","id":"8245022","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI6
Number of Residues16
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"8245022","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI7
Number of Residues8
DetailsSite: {"description":"Transition state stabilizer"}
ChainResidueDetails

site_idSWS_FT_FI8
Number of Residues8
DetailsModified residue: {"description":"N6-carboxylysine","evidences":[{"source":"PubMed","id":"16593333","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI9
Number of Residues72
DetailsRegion: {"description":"Hydrophobic"}
ChainResidueDetails

Catalytic Information from CSA
site_idCSA1
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
ALYS175
ALYS201
ALYS177
AHIS294
AASP203
AHIS327

site_idCSA2
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
BLYS175
BLYS201
BLYS177
BHIS294
BASP203
BHIS327

site_idCSA3
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
CLYS175
CLYS201
CLYS177
CHIS294
CASP203
CHIS327

site_idCSA4
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
DLYS175
DLYS201
DLYS177
DHIS294
DASP203
DHIS327

site_idCSA5
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
ELYS175
ELYS201
ELYS177
EHIS294
EASP203
EHIS327

site_idCSA6
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
FLYS175
FLYS201
FLYS177
FHIS294
FASP203
FHIS327

site_idCSA7
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
GLYS175
GLYS201
GLYS177
GHIS294
GASP203
GHIS327

site_idCSA8
Number of Residues6
Detailsa catalytic site defined by CSA, PubMed 8245022, 7922027, 8648644
ChainResidueDetails
HLYS175
HLYS201
HLYS177
HHIS294
HASP203
HHIS327

site_idMCSA1
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails
ALYS175electrostatic stabiliser, metal ligand, proton donor
ALYS201metal ligand, nucleophile, proton donor
AASP203metal ligand
AGLU204metal ligand
AHIS294proton acceptor
ALYS334electrostatic stabiliser

site_idMCSA2
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails
CLYS175electrostatic stabiliser, metal ligand, proton donor
CLYS201metal ligand, nucleophile, proton donor
CASP203metal ligand
CGLU204metal ligand
CHIS294proton acceptor
CLYS334electrostatic stabiliser

site_idMCSA3
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails
ELYS175electrostatic stabiliser, metal ligand, proton donor
ELYS201metal ligand, nucleophile, proton donor
EASP203metal ligand
EGLU204metal ligand
EHIS294proton acceptor
ELYS334electrostatic stabiliser

site_idMCSA4
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails
GLYS175electrostatic stabiliser, metal ligand, proton donor
GLYS201metal ligand, nucleophile, proton donor
GASP203metal ligand
GGLU204metal ligand
GHIS294proton acceptor
GLYS334electrostatic stabiliser

site_idMCSA5
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails

site_idMCSA6
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails

site_idMCSA7
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails

site_idMCSA8
Number of Residues6
DetailsM-CSA 907
ChainResidueDetails

246704

PDB entries from 2025-12-24

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