7Q5C | pdb_00007q5c

Crystal structure of OmpG in space group 96

• PDB DOI: https://doi.org/10.2210/pdb7Q5C/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2021-11-03 Released: 2022-11-16 
• Deposition Author(s): Nguyen, T.T.M., Khan, A.R., Barringer, R., McManus, J.J., Race, P.R.
• Funding Organization(s): H2020 Marie Curie Actions of the European Commission

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.72 Å
• R-Value Free: 
  0.328 (Depositor), 0.329 (DCC) 
• R-Value Work: 
  0.274 (Depositor), 0.273 (DCC) 

Starting Model: experimental

Literature

Experimental phase diagrams to optimise OmpG

Nguyen, T.T.M., Khan, A.R., Barringer, R., McManus, J.J., Race, P.R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 33.93 kDa 
• Atom Count: 2,134 
• Modeled Residue Count: 254 
• Deposited Residue Count: 281 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer membrane porin G	A [auth XXX]	281	Escherichia coli K-12	Mutation(s): 0  Gene Names: ompG, b1319, JW1312 Membrane Entity: Yes
UniProt
Find proteins for P76045 (Escherichia coli (strain K12)) Explore P76045  Go to UniProtKB:  P76045

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BOG (Subject of Investigation/LOI)	C [auth XXX], E [auth XXX]	octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N
PG4	B [auth XXX], D [auth XXX]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
NA	F [auth XXX]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.72 Å
• R-Value Free:  0.328 (Depositor), 0.329 (DCC) 
• R-Value Work:  0.274 (Depositor), 0.273 (DCC) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.343	α = 90
b = 71.343	β = 90
c = 200.464	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Coot	model building
xia2	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-11-16 
Deposition Author(s): Nguyen, T.T.M., Khan, A.R., Barringer, R., McManus, J.J., Race, P.R.

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Funding Organization	Location	Grant Number
H2020 Marie Curie Actions of the European Commission	European Union	722687

Revision History  

• Version 1.0: 2022-11-16
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description