2V63 Oxidoreductase date Jul 13, 2007
title Crystal Structure Of Rubisco From Chlamydomonas Reinhardtii Large-Subunit V331a Mutation
authors S.Karkehabadi, S.Satagopagan, T.C.Taylor, R.J.Spreitzer, I.Ander
compound source
Molecule: Ribulose Bisphosphate Carboxylase Large Chain
Chain: A, B, C, D, E, F, G, H
Synonym: Ribulose-1,5-Bisphosphate Carboxylase Large Chain, Large Subunit;
Ec: 4.1.1.39
Engineered: Yes
Mutation: Yes
Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: 2137
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pls-V331a

Molecule: Ribulose Bisphosphate Carboxylase Small Chain 1
Chain: I, J, K, L, M, N, O, P
Synonym: Ribulose-1,5-Bisphosphate Carboxylase Small Chain, Small Subunit 1;
Ec: 4.1.1.39
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: 2137
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pls-V331a
symmetry Space Group: P 1 21 1
R_factor 0.191 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
121.377 177.446 122.568 90.00 117.65 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand CAP, EDO, HYP, KCX, MG, MME, SMC enzyme Lyase E.C.4.1.1.39 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceStructural Analysis of Altered Large-Subunit Loop-6/Carboxy-Terminus Interactions That Influence Catalytic Efficiency and CO(2)/O(2) Specificity of Ribulose-1,5-bisphosphate Carboxylase/Oxygenase(,)., Karkehabadi S, Satagopan S, Taylor TC, Spreitzer RJ, Andersson I, Biochemistry. 2007 Oct 2;46(39):11080-9. Epub 2007 Sep 8. PMID:17824672
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (821 Kb) [Save to disk]
  • Biological Unit Coordinates (2v63.pdb1.gz) 807 Kb
  • LPC: Ligand-Protein Contacts for 2V63
  • CSU: Contacts of Structural Units for 2V63
  • Likely Quarternary Molecular Structure file(s) for 2V63
  • Structure Factors (3171 Kb)
  • Retrieve 2V63 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2V63 from S2C, [Save to disk]
  • Re-refined 2v63 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2V63 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2V63
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2V63, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2v63_F] [2v63_C] [2v63_B] [2v63_K] [2v63_H] [2v63_L] [2v63_A] [2v63] [2v63_J] [2v63_E] [2v63_M] [2v63_O] [2v63_D] [2v63_P] [2v63_G] [2v63_I] [2v63_N]
  • SWISS-PROT database: [P00877] [P00873]
  • Domain organization of [RBL_CHLRE] [RBS1_CHLRE] by SWISSPFAM
  • Domain found in 2V63: [RuBisCO_small ] by SMART
  • Other resources with information on 2V63
  • Community annotation for 2V63 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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