8QF0 | pdb_00008qf0

Atomic structure of wormGDH

PDB DOI: https://doi.org/10.2210/pdb8QF0/pdb

Classification: IMMUNE SYSTEM
Organism(s): Heligmosomoides polygyrus bakeri
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-09-01 Released: 2024-09-11
Deposition Author(s): Mourao, A., Geerlof, A., Sattler, M.
Funding Organization(s): Helmholtz Association

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.86 Å
R-Value Free:
0.200 (Depositor), 0.173 (DCC)
R-Value Work:
0.176 (Depositor)
R-Value Observed:
0.178 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Atomic structure of wormGDH

Mourao, A.

To be published.

Macromolecule Content

Total Structure Weight: 112.52 kDa
Atom Count: 8,772
Modeled Residue Count: 1,018
Deposited Residue Count: 1,020
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamate dehydrogenase	A, B	510	Heligmosomoides polygyrus bakeri	Mutation(s): 0 Gene Names: HPBE_LOCUS9300
UniProt
Find proteins for A0A183FP08 (Heligmosomoides polygyrus) Explore A0A183FP08 Go to UniProtKB: A0A183FP08
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A183FP08
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.86 Å
R-Value Free: 0.200 (Depositor), 0.173 (DCC)
R-Value Work: 0.176 (Depositor)
R-Value Observed: 0.178 (Depositor)

Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 149.456	α = 90
b = 149.456	β = 90
c = 144.928	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-09-11

Deposition Author(s):

Funding Organization	Location	Grant Number
Helmholtz Association	Germany	--

Revision History (Full details and data files)

Version 1.0: 2024-09-11
Type: Initial release

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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.