Macromolecules
Sequence Display for 1JDB

Classification: LIGASE

Total Structure Weight: 647382.69

Macromolecule Entities
Molecule Chains Length Organism Details
CARBAMOYL PHOSPHATE SYNTHETASE B, E, H, K 1073 Escherichia coli EC#: 6.3.5.5 IUBMB
Gene Name(s): carB pyrA b0033 JW0031
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CARBAMOYL PHOSPHATE SYNTHETASE C, F, I, L 382 Escherichia coli EC#: 6.3.5.5 IUBMB
Mutation: E183Q
Gene Name(s): carA pyrA b0032 JW0030
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 8 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ADP
Query on ADP

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

B, E, H, K GLUTAMINE
C5 H10 N2 O3
ZDXPYRJPNDTMRX-VKHMYHEASA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ORN
Query on ORN

B, E, H, K L-ornithine
C5 H12 N2 O2
AHLPHDHHMVZTML-BYPYZUCNSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NET
Query on NET

B, E, H, K TETRAETHYLAMMONIUM ION
C8 H20 N
CBXCPBUEXACCNR-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

B, E, H, K PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

B, E, H, K MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

B, C, E, F, H, I, K, L POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

B, C, E, F, H, I, K, L CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Observed: 0.179
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 143.80 α = 90.00
b = 167.70 β = 90.00
c = 323.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1997-03-25
  • Released Date: 1998-06-17
  • Deposition author(s): Thoden, J.B., Holden, H.M., Wesenberg, G., Raushel, F.M., Rayment, I.

Revision History

  • Version 1_0: 1998-06-17

    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