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(-) Description

Title :  CRYSTAL STRUCTURE OF SPINACH RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE (RUBISCO) COMPLEXED WITH CO2, MG2+ AND 2-CARBOXYARABINITOL-1,5-BISPHOSPHATE
 
Authors :  E. Mizohata, H. Matsumura, Y. Okano, M. Kumei, H. Takuma, J. Onodera, K. N. Shibata, T. Inoue, A. Yokota, Y. Kai
Date :  31 Aug 01  (Deposition) - 13 Mar 02  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C,D,S,T,U,V
Biol. Unit 1:  A,B,C,D,S,T,U,V  (2x)
Keywords :  Alpha/Beta Barrel, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. Mizohata, H. Matsumura, Y. Okano, M. Kumei, H. Takuma, J. Onodera, K. Kato, N. Shibata, T. Inoue, A. Yokota, Y. Kai
Crystal Structure Of Activated Ribulose-1, 5-Bisphosphate Carboxylase/Oxygenase From Green Alga Chlamydomonas Reinhardtii Complexed With 2-Carboxyarabinitol-1, 5-Bisphosphate.
J. Mol. Biol. V. 316 679 2002
PubMed-ID: 11866526  |  Reference-DOI: 10.1006/JMBI.2001.5381

(-) Compounds

Molecule 1 - LARGE SUBUNIT OF RUBISCO
    ChainsA, B, C, D
    EC Number4.1.1.39
    OrganLEAVES
    Organism CommonSPINACH
    Organism ScientificSPINACIA OLERACEA
    Organism Taxid3562
    SynonymRIBULOSE BISPHOSPHATE CARBOXYLASE LARGE CHAIN
 
Molecule 2 - SMALL SUBUNIT OF RUBISCO
    ChainsS, T, U, V
    EC Number4.1.1.39
    OrganLEAVES
    Organism CommonSPINACH
    Organism ScientificSPINACIA OLERACEA
    Organism Taxid3562
    SynonymRIBULOSE BISPHOSPHATE CARBOXYLASE SMALL CHAIN 2

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit ABCDSTUV
Biological Unit 1 (2x)ABCDSTUV

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 16)

Asymmetric Unit (4, 16)
No.NameCountTypeFull Name
1CAP4Ligand/Ion2-CARBOXYARABINITOL-1,5-DIPHOSPHATE
2KCX4Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
3MG4Ligand/IonMAGNESIUM ION
4MME4Mod. Amino AcidN-METHYL METHIONINE
Biological Unit 1 (3, 24)
No.NameCountTypeFull Name
1CAP8Ligand/Ion2-CARBOXYARABINITOL-1,5-DIPHOSPHATE
2KCX8Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
3MG-1Ligand/IonMAGNESIUM ION
4MME8Mod. Amino AcidN-METHYL METHIONINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREKCX A:201 , ASP A:203 , GLU A:204 , CAP A:501BINDING SITE FOR RESIDUE MG A 476
2AC2SOFTWAREKCX B:201 , ASP B:203 , GLU B:204 , CAP B:501BINDING SITE FOR RESIDUE MG B 476
3AC3SOFTWAREKCX C:201 , ASP C:203 , GLU C:204 , CAP C:501BINDING SITE FOR RESIDUE MG C 476
4AC4SOFTWAREKCX D:201 , ASP D:203 , GLU D:204 , CAP D:501BINDING SITE FOR RESIDUE MG D 476
5AC5SOFTWARETHR A:173 , LYS A:175 , LYS A:177 , KCX A:201 , ASP A:203 , GLU A:204 , HIS A:294 , ARG A:295 , HIS A:327 , LYS A:334 , LEU A:335 , SER A:379 , GLY A:380 , GLY A:381 , GLY A:403 , GLY A:404 , MG A:476 , HOH A:503 , HOH A:505 , HOH A:508 , HOH A:520 , HOH A:524 , HOH A:558 , HOH A:580 , HOH A:623 , GLU C:60 , THR C:65 , TRP C:66 , ASN C:123BINDING SITE FOR RESIDUE CAP A 501
6AC6SOFTWAREGLU B:60 , THR B:65 , TRP B:66 , ASN B:123 , THR B:173 , LYS B:175 , LYS B:177 , KCX B:201 , ASP B:203 , GLU B:204 , HIS B:294 , ARG B:295 , HIS B:327 , LYS B:334 , LEU B:335 , SER B:379 , GLY B:380 , GLY B:381 , GLY B:403 , GLY B:404 , MG B:476 , HOH B:507 , HOH B:522 , HOH B:547 , HOH B:548 , HOH B:550 , HOH B:602 , HOH B:695BINDING SITE FOR RESIDUE CAP B 501
7AC7SOFTWAREGLU A:60 , THR A:65 , TRP A:66 , ASN A:123 , THR C:173 , LYS C:175 , LYS C:177 , KCX C:201 , ASP C:203 , GLU C:204 , HIS C:294 , ARG C:295 , HIS C:327 , LYS C:334 , LEU C:335 , SER C:379 , GLY C:380 , GLY C:381 , GLY C:403 , GLY C:404 , MG C:476 , HOH C:502 , HOH C:504 , HOH C:548 , HOH C:549 , HOH C:551 , HOH C:554 , HOH C:575 , HOH C:598BINDING SITE FOR RESIDUE CAP C 501
8AC8SOFTWAREGLU D:60 , THR D:65 , TRP D:66 , ASN D:123 , THR D:173 , LYS D:175 , LYS D:177 , KCX D:201 , ASP D:203 , GLU D:204 , HIS D:294 , ARG D:295 , HIS D:327 , LYS D:334 , LEU D:335 , SER D:379 , GLY D:380 , GLY D:381 , GLY D:403 , GLY D:404 , MG D:476 , HOH D:507 , HOH D:526 , HOH D:551 , HOH D:555 , HOH D:559 , HOH D:585 , HOH D:610BINDING SITE FOR RESIDUE CAP D 501

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:247 -C:247
2B:247 -B:247
3D:247 -D:247

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Lys A:175 -Pro A:176
2Lys B:175 -Pro B:176
3Lys C:175 -Pro C:176
4Lys D:175 -Pro D:176

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IR1)

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RUBISCO_LARGEPS00157 Ribulose bisphosphate carboxylase large chain active site.RBL_SPIOL196-204
 
 
 
  4A:196-204
B:196-204
C:196-204
D:196-204
Biological Unit 1 (1, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RUBISCO_LARGEPS00157 Ribulose bisphosphate carboxylase large chain active site.RBL_SPIOL196-204
 
 
 
  8A:196-204
B:196-204
C:196-204
D:196-204

(-) Exons   (0, 0)

(no "Exon" information available for 1IR1)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:464
 aligned with RBL_SPIOL | P00875 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:464
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
            RBL_SPIOL    12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
               SCOP domains d1ir1a2 A:12-147 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                        d1ir1a1 A:148-475 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------1ir1A01 A:22-148  [code=3.30.70.150, no name defined]                                                                          1ir1A02 A:149-462 Rubisco                                                                                                                                                                                                                                                                                                 ------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh..........eeeeeeeee....hhhhhhhhhhhh........hhhhhhhhhhhhh.eeeeeee.......eeeeeeehhhhh...hhhhhhhhhh.hhhhh..eeeeeeeeee.hhhhhh.......hhhhhhhhhh.....eee.........hhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhh....eehhhhhhhhhhhhh..eee..........hhhhhhhhhhhhhh.ee..hhhhh....ee.......eeeee...hhhhhhhhhhhhh...eee.hhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RUBISCO_L------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 A  12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTkDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
                                                                                                                                                                                                                       201-KCX                                                                                                                                                                                                                                                                              

Chain B from PDB  Type:PROTEIN  Length:464
 aligned with RBL_SPIOL | P00875 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:464
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
            RBL_SPIOL    12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
               SCOP domains d1ir1b2 B:12-147 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                        d1ir1b1 B:148-475 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------1ir1B01 B:22-148  [code=3.30.70.150, no name defined]                                                                          1ir1B02 B:149-462 Rubisco                                                                                                                                                                                                                                                                                                 ------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh..........eeeeeeeee....hhhhhhhhhhhhh.......hhhhhhhhhhhhh.eeeeeee.......eeeeeeehhhhh...hhhhhhhhhh.hhhhh..eeeeeeeeee.hhhhhh.......hhhhhhhhhh.....eee.........hhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhh....eehhhhhhhhhhhhh..eee..........hhhhhhhhhhhhhh.ee..hhhhh....ee.......eeeee...hhhhhhhhhhhhh...eee.hhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RUBISCO_L------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 B  12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTkDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
                                                                                                                                                                                                                       201-KCX                                                                                                                                                                                                                                                                              

Chain C from PDB  Type:PROTEIN  Length:464
 aligned with RBL_SPIOL | P00875 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:464
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
            RBL_SPIOL    12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
               SCOP domains d1ir1c2 C:12-147 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                        d1ir1c1 C:148-475 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------1ir1C01 C:22-148  [code=3.30.70.150, no name defined]                                                                          1ir1C02 C:149-462 Rubisco                                                                                                                                                                                                                                                                                                 ------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh..........eeeeeeeee....hhhhhhhhhhhh........hhhhhhhhhhhhh.eeeeeee.......eeeeeeehhhhh...hhhhhhhhhh.hhhhh..eeeeeeeeee.hhhhhh.......hhhhhhhhhh.....eee.........hhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhh....eehhhhhhhhhhhhh..eee..........hhhhhhhhhhhhhh.ee..hhhhh....ee.......eeeee...hhhhhhhhhhhhh...eee.hhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RUBISCO_L------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 C  12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTkDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
                                                                                                                                                                                                                       201-KCX                                                                                                                                                                                                                                                                              

Chain D from PDB  Type:PROTEIN  Length:464
 aligned with RBL_SPIOL | P00875 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:464
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
            RBL_SPIOL    12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
               SCOP domains d1ir1d2 D:12-147 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                        d1ir1d1 D:148-475 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------1ir1D01 D:22-148  [code=3.30.70.150, no name defined]                                                                          1ir1D02 D:149-462 Rubisco                                                                                                                                                                                                                                                                                                 ------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh..........eeeeeeeee....hhhhhhhhhhhh........hhhhhhhhhhhhh.eeeeeee.......eeeeeeehhhhh...hhhhhhhhhh.hhhhh..eeeeeeeeee.hhhhhh.......hhhhhhhhhh.....eee.........hhhhhhhhhhhhhh....eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhh....eehhhhhhhhhhhhh..eee..........hhhhhhhhhhhhhh.ee..hhhhh....ee.......eeeee...hhhhhhhhhhhhh...eee.hhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RUBISCO_L------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 D  12 EFKAGVKDYKLTYYTPEYETLDTDILAAFRVSPQPGVPPEEAGAAVAAESSTGTWTTVWTDGLTNLDRYKGRCYHIEPVAGEENQYICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPVAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTkDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEDMMKRAVFARELGVPIVMHDYLTGGFTANTTLSHYCRDNGLLLHIHRAMHAVIDRQKNHGMHFRVLAKALRLSGGDHIHSGTVVGKLEGERDITLGFVDLLRDDYTEKDRSRGIYFTQSWVSTPGVLPVASGGIHVWHMPALTEIFGDDSVLQFGGGTLGHPWGNAPGAVANRVALEACVQARNEGRDLAREGNTIIREATKWSPELAAACEVWKEIKFEFPAMDTV 475
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471    
                                                                                                                                                                                                                       201-KCX                                                                                                                                                                                                                                                                              

Chain S from PDB  Type:PROTEIN  Length:123
 aligned with RBS2_SPIOL | Q43832 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:123
                                    67        77        87        97       107       117       127       137       147       157       167       177   
           RBS2_SPIOL    58 MKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 180
               SCOP domains d1ir1s_ S: Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                  SCOP domains
               CATH domains -1ir1S00 S:2-123  [code=3.30.190.10, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................hhhhhhhhhhhhhhh..eeeeeee......................eee........hhhhhhhhhhhhhhhh...eeeeeeee....eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 S   1 mKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 123
                            |       10        20        30        40        50        60        70        80        90       100       110       120   
                            1-MME                                                                                                                      

Chain T from PDB  Type:PROTEIN  Length:123
 aligned with RBS2_SPIOL | Q43832 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:123
                                    67        77        87        97       107       117       127       137       147       157       167       177   
           RBS2_SPIOL    58 MKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 180
               SCOP domains d1ir1t_ T: Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                  SCOP domains
               CATH domains -1ir1T00 T:2-123  [code=3.30.190.10, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................hhhhhhhhhhhhhhh..eeeeeee......................eee........hhhhhhhhhhhhhhhh...eeeeeeee....eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 T   1 mKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 123
                            |       10        20        30        40        50        60        70        80        90       100       110       120   
                            1-MME                                                                                                                      

Chain U from PDB  Type:PROTEIN  Length:123
 aligned with RBS2_SPIOL | Q43832 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:123
                                    67        77        87        97       107       117       127       137       147       157       167       177   
           RBS2_SPIOL    58 MKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 180
               SCOP domains d1ir1u_ U: Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                  SCOP domains
               CATH domains -1ir1U00 U:2-123  [code=3.30.190.10, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................hhhhhhhhhhhhhhh..eeeeeee......................eee........hhhhhhhhhhhhhhhh...eeeeeeee....eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 U   1 mKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 123
                            |       10        20        30        40        50        60        70        80        90       100       110       120   
                            1-MME                                                                                                                      

Chain V from PDB  Type:PROTEIN  Length:123
 aligned with RBS2_SPIOL | Q43832 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:123
                                    67        77        87        97       107       117       127       137       147       157       167       177   
           RBS2_SPIOL    58 MKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 180
               SCOP domains d1ir1v_ V: Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                  SCOP domains
               CATH domains -1ir1V00 V:2-123  [code=3.30.190.10, no name defined]                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................hhhhhhhhhhhhhhh..eeeeeee......................eee........hhhhhhhhhhhhhhhh...eeeeeeee....eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ir1 V   1 mKVWPTQNMKRYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNRQVQCVSFIAYKPAGY 123
                            |       10        20        30        40        50        60        70        80        90       100       110       120   
                            1-MME                                                                                                                      

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 12)

Asymmetric Unit

(-) CATH Domains  (3, 12)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IR1)

(-) Gene Ontology  (13, 23)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (RBL_SPIOL | P00875)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004497    monooxygenase activity    Catalysis of the incorporation of one atom from molecular oxygen into a compound and the reduction of the other atom of oxygen to water.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016984    ribulose-bisphosphate carboxylase activity    Catalysis of the reaction: D-ribulose 1,5-bisphosphate + CO2 + H2O = 2 3-phospho-D-glycerate.
biological process
    GO:0015977    carbon fixation    A metabolic process in which carbon (usually derived from carbon dioxide) is incorporated into organic compounds (usually carbohydrates).
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009853    photorespiration    A light-dependent catabolic process occurring concomitantly with photosynthesis in plants (especially C3 plants) whereby dioxygen (O2) is consumed and carbon dioxide (CO2) is evolved. The substrate is glycolate formed in large quantities in chloroplasts from 2-phosphoglycolate generated from ribulose 1,5-bisphosphate by the action of ribulose-bisphosphate carboxylase; the glycolate enters the peroxisomes where it is converted by glycolate oxidase to glyoxylate which undergoes transamination to glycine. This then passes into the mitochondria where it is decarboxylated forming one molecule of serine for every two molecules of glycine. This pathway also exists in photosynthetic bacteria.
    GO:0015979    photosynthesis    The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.
    GO:0019253    reductive pentose-phosphate cycle    The fixation of carbon dioxide (CO2) as glucose in the chloroplasts of C3 plants; uses ATP and NADPH formed in the light reactions of photosynthesis; carbon dioxide reacts with ribulose 1,5-bisphosphate (catalyzed by the function of ribulose-bisphosphate carboxylase) to yield two molecules of 3-phosphoglycerate; these are then phosphorylated by ATP to 1,3-bisphosphateglyceraldehyde which, in turn, is then reduced by NADPH to glyceraldehyde 3-phosphate. The glyceraldehyde 3-phosphate is converted to fructose 5-phosphate and ribulose 5-phosphate by aldolase and other enzymes; the ribulose 5-phosphate is phosphorylated by ATP to ribulose 1,5-bisphosphate.
cellular component
    GO:0009507    chloroplast    A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
    GO:0009536    plastid    Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

Chain S,T,U,V   (RBS2_SPIOL | Q43832)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0004497    monooxygenase activity    Catalysis of the incorporation of one atom from molecular oxygen into a compound and the reduction of the other atom of oxygen to water.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016984    ribulose-bisphosphate carboxylase activity    Catalysis of the reaction: D-ribulose 1,5-bisphosphate + CO2 + H2O = 2 3-phospho-D-glycerate.
biological process
    GO:0015977    carbon fixation    A metabolic process in which carbon (usually derived from carbon dioxide) is incorporated into organic compounds (usually carbohydrates).
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009853    photorespiration    A light-dependent catabolic process occurring concomitantly with photosynthesis in plants (especially C3 plants) whereby dioxygen (O2) is consumed and carbon dioxide (CO2) is evolved. The substrate is glycolate formed in large quantities in chloroplasts from 2-phosphoglycolate generated from ribulose 1,5-bisphosphate by the action of ribulose-bisphosphate carboxylase; the glycolate enters the peroxisomes where it is converted by glycolate oxidase to glyoxylate which undergoes transamination to glycine. This then passes into the mitochondria where it is decarboxylated forming one molecule of serine for every two molecules of glycine. This pathway also exists in photosynthetic bacteria.
    GO:0015979    photosynthesis    The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.
cellular component
    GO:0009507    chloroplast    A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
    GO:0009536    plastid    Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        RBL_SPIOL | P008751aa1 1aus 1rbo 1rco 1rcx 1rxo 1upm 1upp 8ruc
        RBS2_SPIOL | Q438321aa1 1aus 1upm 1upp 1uzd

(-) Related Entries Specified in the PDB File

1ir2 1IR2 CONTAINS CRYSTAL STRUCTURE OF SAME PROTEIN FROM CHLAMYDOMONAS REINHARDTII COMPLEXED WITH 2-CABP