8EXZ | pdb_00008exz

Structure of GDAP1 containing CMT mutant T157P

PDB DOI: https://doi.org/10.2210/pdb8EXZ/pdb

Classification: TRANSFERASE
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2022-10-26 Released: 2023-11-08
Deposition Author(s): Googins, M.R., VanDemark, A.P.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.82 Å
R-Value Free:
0.279 (Depositor), 0.270 (DCC)
R-Value Work:
0.255 (Depositor), 0.260 (DCC)
R-Value Observed:
0.257 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Structure of GDAP1 containing CMT mutant T157P

Googins, M.R., VanDemark, A.P.

To be published.

Macromolecule Content

Total Structure Weight: 82.74 kDa
Atom Count: 3,698
Modeled Residue Count: 448
Deposited Residue Count: 716
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ganglioside-induced differentiation-associated protein 1	A, B	358	Mus musculus	Mutation(s): 1 Gene Names: Gdap1
UniProt & NIH Common Fund Data Resources
Find proteins for O88741 (Mus musculus) Explore O88741 Go to UniProtKB: O88741
IMPC: MGI:1338002
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O88741
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.82 Å
R-Value Free: 0.279 (Depositor), 0.270 (DCC)
R-Value Work: 0.255 (Depositor), 0.260 (DCC)
R-Value Observed: 0.257 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.586	α = 90
b = 80.064	β = 90
c = 85.81	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-11-08

Deposition Author(s):

VanDemark, A.P.

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2023-11-08
Type: Initial release
Version 1.1: 2024-11-13
Changes: Structure summary

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.