Macromolecule Content

Total Structure Weight: 56244.73
Atom Count: 3934
Residue Count: 504
Unique protein chains: 1

4IB2

Crystal structure of a putative lipoprotein (RUMGNA_00858) from Ruminococcus gnavus ATCC 29149 at 1.76 A resolution

DOI: 10.2210/pdb4IB2/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Ruminococcus gnavus (strain ATCC 29149 / VPI C7-9)
Expression System: Escherichia coli

Deposited: 2012-12-07 Released: 2013-01-16
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.76 Å
R-Value Free: 0.184
R-Value Work: 0.162

wwPDB Validation3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of a putative lipoprotein (RUMGNA_00858) from Ruminococcus gnavus ATCC 29149 at 1.76 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Putative Lipoprotein	A, B	252	Ruminococcus gnavus (strain ATCC 29149 / VPI C7-9)
Find proteins for A7AZY4 (Ruminococcus gnavus (strain ATCC 29149 / VPI C7-9)) Go to UniProtKB: A7AZY4
Protein Feature View Full Protein Feature View for A7AZY4

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
CL Query on CL Download SDF File Download CCD File	A, B	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction
GOL Query on GOL Download SDF File Download CCD File	A, B	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction
MET Query on MET Download SDF File Download CCD File	A, B	METHIONINE C₅ H₁₁ N O₂ S FFEARJCKVFRZRR-BYPYZUCNSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.76 Å
R-Value Free: 0.184
R-Value Work: 0.162
Space Group: P 1
Diffraction Data DOI:
10.18430/M34IB2 Protein Diffraction

Unit Cell:

Length (Å)	Angle (°)
a = 40.099	α = 99.81
b = 52.454	β = 87.50
c = 54.908	γ = 94.96

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
XSCALE	data scaling
BUSTER-TNT	refinement
PHASER	phasing
BUSTER	refinement
XDS	data reduction
MolProbity	model building

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2012-12-07
Released Date: 2013-01-16
Deposition Author(s): Joint Center for Structural Genomics (JCSG)

Revision History

Version 1.0: 2013-01-16
Type: Initial release
Version 1.1: 2017-11-15
Type: Refinement description
Version 1.2: 2018-01-24
Type: Database references

The RCSB PDB is funded by a grant (DBI-1338415) from the National Science Foundation, the National Institutes of Health, and the US Department of Energy.