6N56 | pdb_00006n56

Crystal structure of fumarate reductase, flavo protein subunit, from Helicobacter pylori G27

PDB DOI: https://doi.org/10.2210/pdb6N56/pdb

Classification: OXIDOREDUCTASE
Organism(s): Helicobacter pylori G27
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2018-11-21 Released: 2018-12-19
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free:
0.222 (Depositor), 0.229 (DCC)
R-Value Work:
0.171 (Depositor), 0.177 (DCC)
R-Value Observed:
0.174 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of fumarate reductase, flavo protein subunit, from Helicobacter pylori G27

Abendroth, J., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Macromolecule Content

Total Structure Weight: 81.31 kDa
Atom Count: 5,038
Modeled Residue Count: 632
Deposited Residue Count: 722
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fumarate reductase, flavo protein subunit	A	722	Helicobacter pylori G27	Mutation(s): 0 Gene Names: frdA, HPG27_176 EC: 1.3 (PDB Primary Data), 1.3.5.1 (UniProt)
UniProt
Find proteins for B5Z9W3 (Helicobacter pylori (strain G27)) Explore B5Z9W3 Go to UniProtKB: B5Z9W3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B5Z9W3
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free: 0.222 (Depositor), 0.229 (DCC)
R-Value Work: 0.171 (Depositor), 0.177 (DCC)
R-Value Observed: 0.174 (Depositor)

Diffraction Data:

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.89	α = 90
b = 63.89	β = 90
c = 354.53	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MoRDa	phasing
ARP/wARP	model building
BUCCANEER	model building
Coot	model building

Structure Validation

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Entry History

Deposition Data

Released Date: 2018-12-19

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History (Full details and data files)

Version 1.0: 2018-12-19
Type: Initial release
Version 1.1: 2023-10-11
Changes: Data collection, Database references, Refinement description

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.