1OG6

ydhF, an aldo-keto reductase from E.coli complexed with NADPH

PDB DOI: https://doi.org/10.2210/pdb1OG6/pdb

Classification: OXIDOREDUCTASE
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2003-04-24 Released: 2003-05-29
Deposition Author(s): Jeudy, S., Abergel, C., Claverie, J.M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.238
R-Value Work: 0.207
R-Value Observed: 0.207

wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure of Ydhf, an Aldo-Keto Reductase from Escherichia Coli

Jeudy, S., Abergel, C., Claverie, J.M.

To be published.

Macromolecule Content

Total Structure Weight: 103.18 kDa
Atom Count: 7,423
Modelled Residue Count: 890
Deposited Residue Count: 894
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HYPOTHETICAL OXIDOREDUCTASE YDHF	A, B, C	298	Escherichia coli K-12	Mutation(s): 0 EC: 1
UniProt
Find proteins for P76187 (Escherichia coli (strain K12)) Explore P76187 Go to UniProtKB: P76187
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P76187
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAP Query on NAP Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth B] SDF format, chain F [auth C] MOL2 format, chain D [auth A] MOL2 format, chain E [auth B] MOL2 format, chain F [auth C] mmCIF format, chain D [auth A] mmCIF format, chain E [auth B] mmCIF format, chain F [auth C]	D [auth A], E [auth B], F [auth C]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₂₈ N₇ O₁₇ P₃ XJLXINKUBYWONI-NNYOXOHSSA-N		Interactions Focus chain D [auth A] Focus chain E [auth B] Focus chain F [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.238
R-Value Work: 0.207
R-Value Observed: 0.207
Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 174.529	α = 90
b = 174.529	β = 90
c = 97.923	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2003-05-29

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2003-05-29
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: 2024-05-08
Changes: Data collection, Database references

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.