1RLC

CRYSTAL STRUCTURE OF THE UNACTIVATED RIBULOSE 1, 5-BISPHOSPHATE CARBOXYLASE(SLASH)OXYGENASE COMPLEXED WITH A TRANSITION STATE ANALOG, 2-CARBOXY-D-ARABINITOL 1,5-BISPHOSPHATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of the unactivated ribulose 1,5-bisphosphate carboxylase/oxygenase complexed with a transition state analog, 2-carboxy-D-arabinitol 1,5-bisphosphate.

Zhang, K.Y.Cascio, D.Eisenberg, D.

(1994) Protein Sci. 3: 64-69

  • DOI: 10.1002/pro.5560030109

  • PubMed Abstract: 
  • The crystal structure of unactivated ribulose 1,5-bisphosphate carboxylase/oxygenase from Nicotiana tabacum complexed with a transition state analog, 2-carboxy-D-arabinitol 1,5-bisphosphate, was determined to 2.7 A resolution by X-ray crystallography ...

    The crystal structure of unactivated ribulose 1,5-bisphosphate carboxylase/oxygenase from Nicotiana tabacum complexed with a transition state analog, 2-carboxy-D-arabinitol 1,5-bisphosphate, was determined to 2.7 A resolution by X-ray crystallography. The transition state analog binds at the active site in an extended conformation. As compared to the binding of the same analog in the activated enzyme, the analog binds in a reverse orientation. The active site Lys 201 is within hydrogen bonding distance of the carboxyl oxygen of the analog. Loop 6 (residues 330-339) remains open and flexible upon binding of the analog in the unactivated enzyme, in contrast to the closed and ordered loop 6 in the activated enzyme complex. The transition state analog is exposed to solvent due to the open conformation of loop 6.


    Related Citations: 
    • Tertiary Structure of Plant Rubisco: Domains and Their Contacts
      Chapman, M.S.,Suh, S.W.,Curmi, P.M.G.,Cascio, D.,Smith, W.W.,Eisenberg, D.
      (1988) Science 244: 71
    • Sliding-Layer Conformational Change Limited by the Quaternary Structure of Plant Rubisco
      Chapman, M.S.,Suh, S.W.,Cascio, D.,Smith, W.W.,Eisenberg, D.
      (1987) Nature 329: 354
    • Crystal Structure of the Unactivated Form of Ribulose-1,5-Bisphosphate Carboxylase(Slash)Oxygenase from Tobacco Refined at 2.0 Angstroms Resolution
      Curmi, P.M.G.,Cascio, D.,Sweet, R.M.,Eisenberg, D.,Schreuder, H.
      (1992) J.Biol.Chem. 267: 16980


    Organizational Affiliation

    Department of Chemistry and Biochemistry, University of California, Los Angeles 90024-1570.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (LARGE CHAIN)
L
477Nicotiana tabacumGene Names: rbcL (rbcA)
EC: 4.1.1.39
Find proteins for P00876 (Nicotiana tabacum)
Go to UniProtKB:  P00876
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
RIBULOSE 1,5 BISPHOSPHATE CARBOXYLASE/OXYGENASE (SMALL CHAIN)
S
123Nicotiana tabacumGene Names: RBCS
EC: 4.1.1.39
Find proteins for P69249 (Nicotiana tabacum)
Go to UniProtKB:  P69249
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CAP
Query on CAP

Download SDF File 
Download CCD File 
L
2-CARBOXYARABINITOL-1,5-DIPHOSPHATE
C6 H14 O13 P2
ITHCSGCUQDMYAI-ZMIZWQJLSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Work: 0.196 
  • Space Group: I 4 2 2
Unit Cell:
Length (Å)Angle (°)
a = 149.000α = 90.00
b = 149.000β = 90.00
c = 136.800γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORphasing
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-10-31
    Type: Initial release
  • Version 1.1: 2008-03-03
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance