3CKM

Crystal Structure of the YraM (LpoA) C-terminal domain

Structural Biology Knowledgebase: 3CKM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.157

Literature

Macromolecules
Sequence Display for 3CKM

Classification: BIOSYNTHETIC PROTEIN

Total Structure Weight: 36399.62

Macromolecule Entities
Molecule Chains Length Organism Details
YRAM (HI1655) A 327 Haemophilus influenzae Fragment: C-terminal domain, UNP residues 256-573
Gene Name(s): lpoA HI_1655
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BME
Query on BME

A BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.157
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 109.91 α = 90.00
b = 50.64 β = 106.73
c = 63.68 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-03-16
  • Released Date: 2008-05-13
  • Deposition author(s): Vijayalakshmi, J., Saper, M.A.
  • Previous versions: 2H4A

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name