4NKP

Crystal structure of a putative extracellular heme-binding protein (DESPIG_02683) from Desulfovibrio piger ATCC 29098 at 1.24 A resolution

Structural Biology Knowledgebase: 4NKP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.24 Å
  • R-Value Free: 0.149
  • R-Value Work: 0.128

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4NKP

Classification: CHAPERONE

Total Structure Weight: 63894.83

Macromolecule Entities
Molecule Chains Length Organism Details
putative extracellular heme-binding protein A, B, C, D 148 Desulfovibrio piger Gene Name(s): DESPIG_02683

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

A, C, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B, C, D L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.24 Å
  • R-Value Free: 0.149
  • R-Value Work: 0.128
  • Space Group: P 4
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.96 α = 90.00
b = 80.96 β = 90.00
c = 72.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-11-12
  • Released Date: 2013-12-11
  • Deposition author(s): Joint Center for Structural Genomics (JCSG)

Revision History

  • 2014-12-24
    Type: Entry title | Details: --