1QJP | pdb_00001qjp

HIGH RESOLUTION STRUCTURE OF THE OUTER MEMBRANE PROTEIN A (OMPA) TRANSMEMBRANE DOMAIN

• PDB DOI: https://doi.org/10.2210/pdb1QJP/pdb

• Classification: OUTER MEMBRANE
• Organism(s): Escherichia coli BL21(DE3)
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 1999-06-29 Released: 2000-06-30 
• Deposition Author(s): Pautsch, A., Schulz, G.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 
  0.198 (Depositor), 0.248 (DCC) 
• R-Value Work: 
  0.155 (Depositor), 0.218 (DCC) 

Starting Model: experimental

Literature

High Resolution Structure of the Ompa Membrane Domain

Pautsch, A., Schulz, G.E.

(2000) J Mol Biology 298: 273

• PubMed: 10764596 
• DOI: https://doi.org/10.1006/jmbi.2000.3671
• Primary Citation Related Structures: 
  1QJP


• PubMed Abstract: 
  

  The membrane domain of OmpA consists of an eight-stranded all-next-neighbor antiparallel beta-barrel with short turns at the periplasmic barrel end and long flexible loops at the external end. The structure analysis has been extended from medium resolution to 1. 65 A (1 A=0.1 nm), and the molecular model has been refined anisotropically to show oriented mobilities of the structural elements. The improved data allowed us to locate five further detergent molecules and 11 more water molecules. Moreover, the two large non-polar packing contacts have now been defined in detail. The analysis indicates that the beta-barrel constitutes a solid scaffold such that the long external loops need not contribute to stability. These loops are highly mobile and thus cause a major problem during the crystallization process. The beta-barrel was related to those of lipocalins. Two further crystal forms with exceptionally dense packing arrangements were established at medium resolution.

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Organizational Affiliation: 
• Institut für Organische Chemie und Biochemie, Albert-Ludwigs-Universität, Albertstrasse 21, Freiburg im Breisgau, D-79104, Germany.

Biological Assembly 1  

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

Biological assembly 1 generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 20.63 kDa 
• Atom Count: 1,291 
• Modeled Residue Count: 137 
• Deposited Residue Count: 171 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
OUTER MEMBRANE PROTEIN A	A	171	Escherichia coli BL21(DE3)	Mutation(s): 3  Gene Names: OMPA Membrane Entity: Yes
UniProt
Find proteins for P0A910 (Escherichia coli (strain K12)) Explore P0A910  Go to UniProtKB:  P0A910

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C8E	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE C16 H34 O5 FEOZZFHAVXYAMB-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free:  0.198 (Depositor), 0.248 (DCC) 
• R-Value Work:  0.155 (Depositor), 0.218 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.1	α = 90
b = 79.7	β = 94.3
c = 50.2	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-06-30 
Deposition Author(s): Pautsch, A., Schulz, G.E.

Revision History  

• Version 1.0: 2000-06-30
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-10-24
  Changes: Advisory, Data collection, Source and taxonomy
• Version 1.4: 2019-07-10
  Changes: Data collection
• Version 1.5: 2019-07-24
  Changes: Data collection
• Version 1.6: 2023-12-13
  Changes: Advisory, Data collection, Database references, Other, Refinement description