Biological Assembly 1  

 3D View: Structure | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

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

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

Biological Assembly 2  

 3D View: Structure | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 176.19 kDa 
• Atom Count: 12325 
• Modelled Residue Count: 1534 
• Deposited Residue Count: 1552 
• Unique protein chains: 2

2W16

Structures of FpvA bound to heterologous pyoverdines

• DOI: 10.2210/pdb2W16/pdb

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


• Deposited: 2008-10-14 Released: 2009-05-12 
• Deposition Author(s): Greenwald, J., Nader, M., Celia, H., Gruffaz, C., Meyer, J.-M., Schalk, I.J., Pattus, F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free: 0.253 
• R-Value Work: 0.217 
• R-Value Observed: 0.219 

Literature

Fpva Bound to Non-Cognate Pyoverdines: Molecular Basis of Siderophore Recognition by an Iron Transporter.

Greenwald, J., Nader, M., Celia, H., Gruffaz, C., Geoffroy, V., Meyer, J.M., Schalk, I.J., Pattus, F.

(2009) Mol Microbiol 72: 1246

• PubMed: 19504741 
• DOI: 10.1111/j.1365-2958.2009.06721.x
• Primary Citation of Related Structures:  
  2W16, 2W6T, 2W6U, 2W75, 2W76, 2W77, 2W78


• PubMed Abstract: 
  

The first step in the specific uptake of iron via siderophores in Gram-negative bacteria is the recognition and binding of a ferric siderophore by its cognate receptor. We investigated the molecular basis of this event through structural and biochemical approaches. FpvA, the pyoverdine-Fe transporter from Pseudomonas aeruginosa ATCC 15692 (PAO1 strain), is able to transport ferric-pyoverdines originating from other species, whereas most fluorescent pseudomonads are only able to use the one they produce among the more than 100 known different pyoverdines. We solved the structure of FpvA bound to non-cognate pyoverdines of high- or low-affinity and found a close correlation between receptor-ligand structure and the measured affinities. The structure of the first amino acid residues of the pyoverdine chain distinguished the high- and low-affinity binders while the C-terminal portion of the pyoverdines, often cyclic, does not appear to contribute extensively to the interaction between the siderophore and its transporter. The specificity of the ferric-pyoverdine binding site of FpvA is conferred by the structural elements common to all ferric-pyoverdines, i.e. the chromophore, iron, and its chelating groups.

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Organizational Affiliation: 

Laboratoire de Biologie Structurale des Membranes, UMR7175, Ecole Supérieure de Biotechnologie de Strasbourg, Bd Sébastien Brant, BP10413, 67412 Illkirch, France. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FERRIPYOVERDINE RECEPTOR	A, B	772	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: fpvA, PA2398 Membrane Entity: Yes
UniProt
Find proteins for P48632 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore P48632  Go to UniProtKB:  P48632

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DSN-ARG-DSN-FHO-LYS-FHO-THR-THR	C	8	Pseudomonas aeruginosa PAO1	Mutation(s): 0

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PVE (Subject of Investigation/LOI)	P [auth C]	(1S)-1-CARBOXY-5-[(3-CARBOXYPROPANOYL)AMINO]-8,9-DIHYDROXY-1,2,3,4-TETRAHYDROPYRIMIDO[1,2-A]QUINOLIN-11-IUM C17 H18 N3 O7 PKIXPGNFUHEBHN-JTQLQIEISA-O
N8E (Subject of Investigation/LOI)	D [auth A], E [auth A]	3,6,9,12,15-PENTAOXATRICOSAN-1-OL C18 H38 O6 MJELOWOAIAAUJT-UHFFFAOYSA-N
PO4	F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth B], M [auth B], N [auth B], O [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
FE	Q [auth C]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
FHO	C	L-PEPTIDE LINKING	C6 H12 N2 O4		LYS

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000723	C	PYOVERDIN C-E Fe Complex	Polypeptide / Metal transport		Ligand Interaction

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free: 0.253 
• R-Value Work: 0.217 
• R-Value Observed: 0.219 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 195.22	α = 90
b = 130.082	β = 130.67
c = 141.783	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Ligand Structure Quality Assessment  

Entry History 

Deposition Data

• Deposited Date: 2008-10-14 
• Released Date: 2009-05-12 
Deposition Author(s): Greenwald, J., Nader, M., Celia, H., Gruffaz, C., Meyer, J.-M., Schalk, I.J., Pattus, F.

Revision History  

• Version 1.0: 2009-05-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Atomic model, Database references, Derived calculations, Non-polymer description, Refinement description, Structure summary, Version format compliance
• Version 1.2: 2013-03-06
  Changes: Other
• Version 1.3: 2018-06-20
  Changes: Data collection, Source and taxonomy
• Version 1.4: 2019-07-10
  Changes: Data collection, Derived calculations
• Version 1.5: 2019-07-24
  Changes: Data collection
• Version 1.6: 2019-07-31
  Changes: Advisory, Data collection, Derived calculations