1CQI

Crystal Structure of the Complex of ADP and MG2+ with Dephosphorylated E. Coli Succinyl-CoA Synthetase

Structural Biology Knowledgebase: 1CQI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.247
  • R-Value Work: 0.191

Literature

Macromolecules
Sequence Display for 1CQI

Classification: LIGASE

Total Structure Weight: 143749.36

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (SUCCINYL-COA SYNTHETASE ALPHA CHAIN) A, D 286 Escherichia coli EC#: 6.2.1.5 IUBMB
Fragment: ALPHA SUBUNIT
Gene Name(s): sucD b0729 JW0718
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROTEIN (SUCCINYL-COA SYNTHETASE BETA CHAIN) B, E 385 Escherichia coli EC#: 6.2.1.5 IUBMB
Fragment: BETA SUBUNIT
Gene Name(s): sucC b0728 JW0717
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
COA
Query on COA

A, D COENZYME A
C21 H36 N7 O16 P3 S
RGJOEKWQDUBAIZ-IBOSZNHHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ADP
Query on ADP

B, E ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, D PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B, E MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.247
  • R-Value Work: 0.191
  • Space Group: P 43 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 99.86 α = 90.00
b = 99.86 β = 90.00
c = 407.15 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-08-06
  • Released Date: 2000-01-07
  • Deposition author(s): Joyce, M.A., Fraser, M.E., James, M.N.G., Bridger, W.A., Wolodko, W.T.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4