6T8C

Crystal structure of formate dehydrogenase FDH2 enzyme from Granulicella mallensis MP5ACTX8 in the apo form.

PDB DOI: https://doi.org/10.2210/pdb6T8C/pdb

Classification: OXIDOREDUCTASE
Organism(s): Granulicella mallensis MP5ACTX8
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-10-24 Released: 2020-08-05
Deposition Author(s): Robescu, M.S., Rubini, R., Filippini, F., Bergantino, B., Cendron, L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.97 Å

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

From the Amelioration of a NADP+-dependent Formate Dehydrogenase to the Discovery of a New Enzyme: Round Trip from Theory to Practice

Robescu, M.S., Rubini, R., Beneventi, E., Tavanti, M., Lonigro, C., Zito, F., Filippini, F., Cendron, L., Bergantino, E.

(2020) ChemCatChem

DOI: https://doi.org/10.1002/cctc.201902089

Macromolecule Content

Total Structure Weight: 170.36 kDa
Atom Count: 12,435
Modelled Residue Count: 1,494
Deposited Residue Count: 1,544
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Formate dehydrogenase	A, B, C, D	386	Granulicella mallensis MP5ACTX8	Mutation(s): 0 Gene Names: AciX8_0868 EC: 1.17.1.9
UniProt
Find proteins for G8NTI5 (Granulicella mallensis (strain ATCC BAA-1857 / DSM 23137 / MP5ACTX8)) Explore G8NTI5 Go to UniProtKB: G8NTI5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G8NTI5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.97 Å
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.357	α = 90
b = 112.492	β = 90
c = 147.251	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2020-08-05

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2020-08-05
Type: Initial release
Version 1.1: 2024-01-24
Changes: Data collection, Database references, Refinement description

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 R01GM133198.