Macromolecule Content

Total Structure Weight: 44.11 kDa
Atom Count: 3,344
Modelled Residue Count: 402
Deposited Residue Count: 408
Unique protein chains: 1

2GR3

Crystal structure of Ferredoxin reductase, BphA4 (oxidized form)

PDB DOI: https://doi.org/10.2210/pdb2GR3/pdb

Classification: OXIDOREDUCTASE
Organism(s): Pseudomonas sp. KKS102
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-04-22 Released: 2007-05-22
Deposition Author(s): Senda, T., Senda, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.206
R-Value Work: 0.190
R-Value Observed: 0.191

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

A ferredoxin reductase BphA4 uses a butterfly motion of FAD to regulate affinity for ferredoxin

Senda, M., Kishigami, S., Kimura, S., Ishida, T., Fukuda, M., Senda, T.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ferredoxin reductase	A	408	Pseudomonas sp. KKS102	Mutation(s): 1 Gene Names: bphA4 EC: 1.18.1.2
UniProt
Find proteins for Q52437 (Pseudomonas sp. (strain KKS102)) Explore Q52437 Go to UniProtKB: Q52437
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q52437
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FAD Query on FAD Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	FLAVIN-ADENINE DINUCLEOTIDE C₂₇ H₃₃ N₉ O₁₅ P₂ VWWQXMAJTJZDQX-UYBVJOGSSA-N		Ligand Interaction
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A]	C [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction
FMT Query on FMT Download Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A]	D [auth A]	FORMIC ACID C H₂ O₂ BDAGIHXWWSANSR-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.206
R-Value Work: 0.190
R-Value Observed: 0.191
Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.107	α = 90
b = 98.107	β = 90
c = 170.73	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
XDS	data scaling
XTALVIEW	refinement

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2007-05-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2007-05-22
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.3: 2021-11-10
Changes: Database references, Derived calculations

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.