9JLQ | pdb_00009jlq

Crystal structure of GH57 family amylopullulanase from Aquifex aeolicus wild type apo

PDB DOI: https://doi.org/10.2210/pdb9JLQ/pdb

Classification: HYDROLASE
Organism(s): Aquifex aeolicus VF5
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-09-19 Released: 2025-06-04
Deposition Author(s): Zhu, Z.M., Wang, W.W., Yu, F., Wang, Q.S.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.54 Å
R-Value Free:
0.243 (Depositor), 0.243 (DCC)
R-Value Work:
0.198 (Depositor), 0.198 (DCC)
R-Value Observed:
0.200 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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Literature

High-Temperature Crystallization Method for the GH57 Family Hyperthermophilic Amylopullulanase from Aquifex aeolicus

Zhu, Z., Wang, W., Huang, L., Xu, Q., Zhou, H., Li, M., Yu, F., Wang, Q.

(2024) Cryst Growth Des 24: 10350-10357

DOI: https://doi.org/10.1021/acs.cgd.4c01306

Macromolecule Content

Total Structure Weight: 232.75 kDa
Atom Count: 16,492
Modeled Residue Count: 1,921
Deposited Residue Count: 1,936
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycoside hydrolase family 57 N-terminal domain-containing protein	A, B, C, D	484	Aquifex aeolicus VF5	Mutation(s): 0 Gene Names: aq_720
UniProt
Find proteins for O66934 (Aquifex aeolicus (strain VF5)) Explore O66934 Go to UniProtKB: O66934
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O66934
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.54 Å
R-Value Free: 0.243 (Depositor), 0.243 (DCC)
R-Value Work: 0.198 (Depositor), 0.198 (DCC)
R-Value Observed: 0.200 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.658	α = 90
b = 166.73	β = 110.31
c = 99.514	γ = 90

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-06-04

Deposition Author(s):

Funding Organization	Location	Grant Number
Other government	China	--

Revision History (Full details and data files)

Version 1.0: 2025-06-04
Type: Initial release