1BWV

Activated Ribulose 1,5-Bisphosphate Carboxylase/Oxygenase (RUBISCO) Complexed with the Reaction Intermediate Analogue 2-Carboxyarabinitol 1,5-Bisphosphate

Structural Biology Knowledgebase: 1BWV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.163

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1BWV

Classification: LYASE

Total Structure Weight: 286649.68

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (RIBULOSE BISPHOSPHATE CARBOXYLASE) A, C, E, G 493 Galdieria partita EC#: 4.1.1.39 IUBMB
Mutation: K201X
Details: THE ENZYME IS COMPLEXED WITH CARBON DIOXIDE, MG2+ AND REACTION INTERMEDIATE ANALOGUE, 2-CARBOXYARABINITOL 1,5-BISPHOSPHATE. RESIDUE 201, KCX, OF THE LARGE SUBUNIT IS A LYS CARBAMYLATED AT THE EPSILON-AMINO GROUP
Gene Name(s):
PROTEIN (RIBULOSE BISPHOSPHATE CARBOXYLASE) S, U, W, Y 138 Galdieria partita EC#: 4.1.1.39 IUBMB
Mutation: M8V
Details: THE ENZYME IS COMPLEXED WITH CARBON DIOXIDE, MG2+ AND REACTION INTERMEDIATE ANALOGUE, 2-CARBOXYARABINITOL 1,5-BISPHOSPHATE. RESIDUE 201, KXC, OF THE LARGE SUBUNIT IS A LYS CARBAMYLATED AT THE EPSILON-AMINO GROUP
Gene Name(s): rbcS

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CAP
Query on CAP

A, C, E, G 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE
C6 H14 O13 P2
ITHCSGCUQDMYAI-ZMIZWQJLSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, C, E, G MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
KCX
Query on KCX
A, C, E, G L-PEPTIDE LINKING C7 H14 N2 O4 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.163
  • Space Group: P 64
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 117.07 α = 90.00
b = 117.07 β = 90.00
c = 319.63 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-09-29
  • Released Date: 1999-09-27
  • Deposition author(s): Sugawara, H., Yamamoto, H., Shibata, N., Inoue, T., Miyake, C., Yokota, A., Kai, Y.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values