8ZQA | pdb_00008zqa

Crystal structure of 1,4-alpha-glucan branching protein from Rhodothermus profundi

PDB DOI: https://doi.org/10.2210/pdb8ZQA/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Rhodothermus profundi
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2024-06-01 Released: 2024-10-02
Deposition Author(s): Li, Q., Zong, Z.Y., Liu, W.D.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.91 Å
R-Value Free:
0.256 (Depositor), 0.251 (DCC)
R-Value Work:
0.197 (Depositor)
R-Value Observed:
0.200 (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

Crystal structure of 1,4-alpha-glucan branching protein from Rhodothermus profundi

Li, Q., Zong, Z.Y., Liu, W.D.

To be published.

Macromolecule Content

Total Structure Weight: 579.06 kDa
Atom Count: 39,395
Modeled Residue Count: 4,817
Deposited Residue Count: 4,960
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
1,4-alpha-glucan branching enzyme GlgB	A, B, C, D, E A, B, C, D, E, F, G, H	620	Rhodothermus profundi	Mutation(s): 0 Gene Names: glgB, SAMN04488087_0136 EC: 2.4.1.18
UniProt
Find proteins for A0A1M6PD84 (Rhodothermus profundi) Explore A0A1M6PD84 Go to UniProtKB: A0A1M6PD84
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A1M6PD84
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.91 Å
R-Value Free: 0.256 (Depositor), 0.251 (DCC)
R-Value Work: 0.197 (Depositor)
R-Value Observed: 0.200 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.302	α = 73.59
b = 112.266	β = 73.77
c = 166.26	γ = 65.25

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-10-02

Deposition Author(s):

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

Revision History (Full details and data files)

Version 1.0: 2024-10-02
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.