7EKU

Crystal Structure of the Candida Glabrata Glycogen Debranching Enzyme (W958A)

PDB DOI: https://doi.org/10.2210/pdb7EKU/pdb

Classification: SUGAR BINDING PROTEIN
Organism(s): Nakaseomyces glabratus CBS 138
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2021-04-06 Released: 2022-04-13
Deposition Author(s): Shen, M., Xiang, S.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.273
R-Value Work: 0.231
R-Value Observed: 0.233

wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure of the Candida Glabrata Glycogen Debranching Enzyme (W958A)

Shen, M., Xiang, S.

To be published.

Macromolecule Content

Total Structure Weight: 350.86 kDa
Atom Count: 24,309
Modelled Residue Count: 3,023
Deposited Residue Count: 3,072
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-alpha-glucanotransferase	A, B	1,536	Nakaseomyces glabratus CBS 138	Mutation(s): 1 Gene Names: GDB1 EC: 2.4.1.25 (PDB Primary Data), 3.2.1.33 (PDB Primary Data)
UniProt
Find proteins for Q6FSK0 (Candida glabrata (strain ATCC 2001 / BCRC 20586 / JCM 3761 / NBRC 0622 / NRRL Y-65 / CBS 138)) Explore Q6FSK0 Go to UniProtKB: Q6FSK0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q6FSK0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.273
R-Value Work: 0.231
R-Value Observed: 0.233
Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 160.221	α = 90
b = 200.651	β = 90
c = 259.976	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2022-04-13

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31870769
National Natural Science Foundation of China (NSFC)	China	32071205

Revision History (Full details and data files)

Version 1.0: 2022-04-13
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, 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.