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(-) Description

Title :  CRYSTAL STRUCTURE OF ACTIVATED RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE COMPLEXED WITH ITS SUBSTRATE, RIBULOSE-1,5-BISPHOSPHATE
 
Authors :  T. Lundqvist, G. Schneider
Date :  28 Nov 90  (Deposition) - 15 Jan 93  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Lyase(Carbon-Carbon) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Lundqvist, G. Schneider
Crystal Structure Of Activated Ribulose-1, 5-Bisphosphate Carboxylase Complexed With Its Substrate, Ribulose-1, 5-Bisphosphate.
J. Biol. Chem. V. 266 12604 1991
PubMed-ID: 1905726
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE
    Chains: A, B
    EC Number: 4.1.1.39
    Engineered: YES
    Organism Scientific: RHODOSPIRILLUM RUBRUM
    Organism Taxid: 1085

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1FMT2Ligand/IonFORMIC ACID
2MG2Ligand/IonMAGNESIUM ION
3RUB2Ligand/IonRIBULOSE-1,5-DIPHOSPHATE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:164 , ASP A:193 , HIS A:321 , ILE A:366 , SER A:368 , ALA A:392 , GLY A:393 , MG A:500 , FMT A:601 , ASN B:111BINDING SITE FOR RESIDUE RUB A 600
2AC2SOFTWAREILE B:164 , HIS B:287 , HIS B:321 , THR B:322 , SER B:368 , GLY B:369 , THR B:391 , ALA B:392 , GLY B:393 , MG B:500 , FMT B:701BINDING SITE FOR RESIDUE RUB B 700
3AC3SOFTWAREASP A:193 , RUB A:600 , FMT A:601BINDING SITE FOR RESIDUE MG A 500
4AC4SOFTWAREASP B:193 , GLU B:194 , RUB B:700 , FMT B:701BINDING SITE FOR RESIDUE MG B 500
5AC5SOFTWAREILE A:164 , LYS A:191 , ASN A:192 , ASP A:193 , MG A:500 , RUB A:600BINDING SITE FOR RESIDUE FMT A 601
6AC6SOFTWARELYS B:191 , ASP B:193 , GLU B:194 , HIS B:287 , HIS B:321 , MG B:500 , RUB B:700BINDING SITE FOR RESIDUE FMT B 701
7ACTAUTHORFMT A:601 , LYS A:191 , ASP A:193 , GLU A:194 , MG A:500ACTIVE SITE CHAIN A
8BCTAUTHORFMT B:701 , LYS B:191 , ASP B:193 , GLU B:194 , MG B:500ACTIVE SITE CHAIN B

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 9RUB)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys A:166 -Pro A:167
2Lys B:166 -Pro B:167

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 9RUB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 9RUB)

(-) Exons   (0, 0)

(no "Exon" information available for 9RUB)

(-) Sequences/Alignments

Asymmetric/Biological 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:459
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d9ruba2 A:2-137 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                         d9ruba1 A:138-460 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ---9rubA01 A:5-136  [code=3.30.70.150, no name defined]                                                                                9rubA02 A:137-439 Rubisco                                                                                                                                                                                                                                                                                      --------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee...hhhhhhh..eeeeeeeeee.....hhhhhhhhhhhh...................eeeeeee...eeeeeeee..............hhhhhhhhh.......eeeeeeeeeee..hhhh..........hhhhhhh.........eeeee........hhhhhhhhhhhh....eee............hhhhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhhhhh......eeeeee.....hhhhhhhhhh.....eeee....hhhh.........hhhhhhhhhhh...eee...............hhhhhhhh...................eeeeee.....hhhh..........eeee..........hhhhhhhhhhhhhhhhh...hhhhhhh.hhhhhhhhhh.hhhhhhh..hhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 9rub A   2 DQSSRYVNLALKEEDLIAGGEHVLCAYIMKPKAGYGYVATAAHFAAESSTGTNVEVCTTDDFTRGVDALVYEVDEARELTKIAYPVALFDRNITDGKAMIASFLTLTMGNNQGMGDVEYAKMHDFYVPEAYRALFDGPSVNISALWKVLGRPEVDGGLVVGTIIKPKLGLRPKPFAEACHAFWLGGDFIKNDEPQGNQPFAPLRDTIALVADAMRRAQDETGEAKLFSANITADDPFEIIARGEYVLETFGENASHVALLVDGYVAGAAAITTARRRFPDNFLHYHRAGHGAVTSPQSKRGYTAFVHCKMARLQGASGIHTGTMGFGKMEGESSDRAIAYMLTQDEAQGPFYRQSWGGMKACTPIISGGMNALRMPGFFENLGNANVILTAGGGAFGHIDGPVAGARSLRQAWQAWRDGVPVLDYAREHKELARAFESFPGDADQIYPGWRKALGVEDT 460
                                    11        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         


Chain B from PDB  Type:PROTEIN  Length:458
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d9rubb2 B:2-137 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                         d9rubb1 B:138-459 Ribulose 1,5-bisphosphate carboxylase-oxygenase                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ---9rubB01 B:5-136  [code=3.30.70.150, no name defined]                                                                                9rubB02 B:137-439 Rubisco                                                                                                                                                                                                                                                                                      -------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee...hhhhhhh..eeeeeeeeee.....hhhhhhhhhhhh...................eeeeeee...eeeeeeee..............hhhhhhhhh.......eeeeeeeeeee..hhhh..........hhhhhhh.........eeeee........hhhhhhhhhhhh....eee............hhhhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhhhhh......eeeeee.....hhhhhhhhhh.....eeee....hhhh.........hhhhhhhhhhh...eee...............hhhhhhhh...................eeeeee.....hhhhhhhhh...................hhhhhhhhhhhhhhhhh...hhhhhhh.hhhhhhhhhh.hhhhhhh..hhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 9rub B   2 DQSSRYVNLALKEEDLIAGGEHVLCAYIMKPKAGYGYVATAAHFAAESSTGTNVEVCTTDDFTRGVDALVYEVDEARELTKIAYPVALFDRNITDGKAMIASFLTLTMGNNQGMGDVEYAKMHDFYVPEAYRALFDGPSVNISALWKVLGRPEVDGGLVVGTIIKPKLGLRPKPFAEACHAFWLGGDFIKNDEPQGNQPFAPLRDTIALVADAMRRAQDETGEAKLFSANITADDPFEIIARGEYVLETFGENASHVALLVDGYVAGAAAITTARRRFPDNFLHYHRAGHGAVTSPQSKRGYTAFVHCKMARLQGASGIHTGTMGFGKMEGESSDRAIAYMLTQDEAQGPFYRQSWGGMKACTPIISGGMNALRMPGFFENLGNANVILTAGGGAFGHIDGPVAGARSLRQAWQAWRDGVPVLDYAREHKELARAFESFPGDADQIYPGWRKALGVED 459
                                    11        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
   Legend:   → Mismatch (orange background)
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  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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 9RUB)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        RBL2_RHORU | P04718: 1rba 1rus 2rus 5hqm 5rub

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