1LQA

TAS PROTEIN FROM ESCHERICHIA COLI IN COMPLEX WITH NADPH

PDB DOI: https://doi.org/10.2210/pdb1LQA/pdb

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

Deposited: 2002-05-09 Released: 2003-07-08
Deposition Author(s): Obmolova, G., Teplyakov, A., Khil, P.P., Howard, A.J., Camerini-Otero, R.D., Gilliland, G.L., Structure 2 Function Project (S2F)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.186
R-Value Work: 0.145
R-Value Observed: 0.146

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of the Escherichia coli Tas protein, an NADP(H)-dependent aldo-keto reductase

Obmolova, G., Teplyakov, A., Khil, P.P., Howard, A.J., Camerini-Otero, R.D., Gilliland, G.L.

(2003) Proteins 53: 323-325

PubMed: 14519207 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1186/1472-6807-3-7
Primary Citation of Related Structures:
1LQA, 1NMO, 1NMP

PubMed Abstract:
The protein encoded by the gene ybgI was chosen as a target for a structural genomics project emphasizing the relation of protein structure to function. The structure of the ybgI protein is a toroid composed of six polypeptide chains forming a trimer of dimers. Each polypeptide chain binds two metal ions on the inside of the toroid. The toroidal structure is comparable to that of some proteins that are involved in DNA metabolism. The di-nuclear metal site could imply that the specific function of this protein is as a hydrolase-oxidase enzyme.

Organizational Affiliation

Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute and the National Institute of Standards and Technology, 9600 Gudelsky Drive, Rockville, MD 20850, USA. jane.ladner@nist.gov

Macromolecule Content

Total Structure Weight: 78.58 kDa
Atom Count: 6,401
Modelled Residue Count: 692
Deposited Residue Count: 692
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tas protein	A, B	346	Escherichia coli	Mutation(s): 0 Gene Names: Tas
UniProt
Find proteins for P0A9T4 (Escherichia coli (strain K12)) Explore P0A9T4 Go to UniProtKB: P0A9T4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0A9T4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NDP Query on NDP Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B]	C [auth A], D [auth B]	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₃₀ N₇ O₁₇ P₃ ACFIXJIJDZMPPO-NNYOXOHSSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.186
R-Value Work: 0.145
R-Value Observed: 0.146
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.3	α = 90
b = 81.46	β = 90
c = 145.02	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
MLPHARE	phasing
REFMAC	refinement
HKL-2000	data reduction

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2003-07-08

Deposition Author(s):

Structure 2 Function Project (S2F)

Revision History (Full details and data files)

Version 1.0: 2003-07-08
Type: Initial release
Version 1.1: 2008-04-28
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2024-02-14
Changes: Data collection, Database references, Derived calculations