9B9M

Crystal structure of iron-bound FlcD from Pseudomonas aeruginosa

• PDB DOI: https://doi.org/10.2210/pdb9B9M/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Pseudomonas aeruginosa
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-04-02 Released: 2024-07-31 
• Deposition Author(s): Walker, M.E., Grove, T.L., Li, B., Redinbo, M.R.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.241 
• R-Value Work: 0.200 
• R-Value Observed: 0.200 

Starting Model: experimental

Literature

Structural Basis for Methine Excision by a Heme Oxygenase-like Enzyme

Simke, W.C., Walker, M.E., Calderone, L.A., Putz, A.T., Patteson, J.B., Vitro, C.N., Zizola, C.F., Redinbo, M.R., Pandelia, M.E., Grove, T.L., Li, B.

(2024) ACS Cent Sci 

• DOI: https://doi.org/10.1021/acscentsci.4c00015

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 161.18 kDa 
• Atom Count: 11,276 
• Modelled Residue Count: 1,307 
• Deposited Residue Count: 1,404 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C	A, B, C, D	351	Pseudomonas aeruginosa	Mutation(s): 0  Gene Names: pqqC_2, CAZ10_19980, DT376_18990, NCTC13621_03444, PAERUG_P19_London_7_VIM_2_05_10_05324 EC: 1.3.3.11
UniProt
Find proteins for A0A0C7AN42 (Pseudomonas aeruginosa) Explore A0A0C7AN42  Go to UniProtKB:  A0A0C7AN42

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FE2 (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.241 
• R-Value Work: 0.200 
• R-Value Observed: 0.200 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.941	α = 90
b = 114.061	β = 102.54
c = 103.952	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-31 
Deposition Author(s): Walker, M.E., Grove, T.L., Li, B., Redinbo, M.R.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM148685
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM137286

Revision History  

• Version 1.0: 2024-07-31
  Type: Initial release