2O4V | pdb_00002o4v

An arginine ladder in OprP mediates phosphate specific transfer across the outer membrane

• PDB DOI: https://doi.org/10.2210/pdb2O4V/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Pseudomonas aeruginosa PAO1
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2006-12-05 Released: 2006-12-26 
• Deposition Author(s): Moraes, T.F., Bains, M., Hancock, R.E., Strynadka, N.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 
  0.194 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.175 (Depositor) 

Literature

An arginine ladder in OprP mediates phosphate-specific transfer across the outer membrane.

Moraes, T.F., Bains, M., Hancock, R.E., Strynadka, N.C.

(2007) Nat Struct Mol Biol 14: 85-87

• PubMed: 17187075 
• DOI: https://doi.org/10.1038/nsmb1189
• Primary Citation of Related Structures:  
  2O4V


• PubMed Abstract: 
  

  The outer membrane protein OprP mediates the transport of essential phosphate anions into the pathogenic bacterium Pseudomonas aeruginosa. Here we report the crystallographic structure of trimeric OprP at 1.9-A resolution, revealing an unprecedented 9-residue arginine 'ladder' that spans from the extracellular surface down through a constriction zone where phosphate is coordinated. Lysine residues coat the inner periplasmic surface, creating an 'electropositive sink' that pulls the phosphates through the eyelet and into the cell.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biology and the Center for Blood Research, University of British Columbia, 2350 Health Sciences Mall, Vancouver, British Columbia V6T 1Z3, Canada.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 137.69 kDa 
• Atom Count: 10,352 
• Modelled Residue Count: 1,233 
• Deposited Residue Count: 1,233 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Porin P	A, B, C	411	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for P05695 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore P05695  Go to UniProtKB:  P05695

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C8E	G [auth A], H [auth A], I [auth A], O [auth C]	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE C16 H34 O5 FEOZZFHAVXYAMB-UHFFFAOYSA-N
PO4	E [auth A], L [auth B], N [auth C]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
GOL	J [auth A], P [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	D [auth A], K [auth B], M [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free:  0.194 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.175 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 255.13	α = 90
b = 142.769	β = 99.49
c = 62.025	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
MOSFLM	data reduction
CCP4	data scaling
SHELXS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-12-26 
Deposition Author(s): Moraes, T.F., Bains, M., Hancock, R.E., Strynadka, N.C.

Revision History  

• Version 1.0: 2006-12-26
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations