4QLA | pdb_00004qla

Crystal structure of juvenile hormone epoxide hydrolase from the silkworm Bombyx mori

PDB DOI: https://doi.org/10.2210/pdb4QLA/pdb

Classification: HYDROLASE
Organism(s): Bombyx mori
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2014-06-11 Released: 2014-09-03
Deposition Author(s): Zhou, K., Jia, N., Hu, C., Jiang, Y.L., Yang, J.P., Chen, Y., Li, S., Zhou, C.Z.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.251 (Depositor), 0.265 (DCC)
R-Value Work:
0.203 (Depositor)
R-Value Observed:
0.206 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 4QLA

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of juvenile hormone epoxide hydrolase from the silkworm Bombyx mori.

Zhou, K., Jia, N., Hu, C., Jiang, Y.L., Yang, J.P., Chen, Y., Li, S., Li, W.F., Zhou, C.Z.

(2014) Proteins 82: 3224-3229

PubMed: 25143157 Search on PubMed
DOI: https://doi.org/10.1002/prot.24676
Primary Citation Related Structures:
4QLA

Organizational Affiliation

Hefei National Laboratory for Physical Sciences at the Microscale, and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui, 230027, People's Republic of China.

Macromolecule Content

Total Structure Weight: 102.49 kDa
Atom Count: 6,682
Modeled Residue Count: 804
Deposited Residue Count: 894
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Juvenile hormone epoxide hydrolase	A, B	447	Bombyx mori	Mutation(s): 5 EC: 3.3.2.9
UniProt
Find proteins for Q6U6J0 (Bombyx mori) Explore Q6U6J0 Go to UniProtKB: Q6U6J0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6U6J0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
1PE Query on 1PE Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	PENTAETHYLENE GLYCOL C₁₀ H₂₂ O₆ JLFNLZLINWHATN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.251 (Depositor), 0.265 (DCC)
R-Value Work: 0.203 (Depositor)
R-Value Observed: 0.206 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 161.404	α = 90
b = 51.466	β = 122.68
c = 124.449	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-09-03

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-09-03
Type: Initial release
Version 1.1: 2022-08-24
Changes: Database references, Derived calculations
Version 1.2: 2023-11-08
Changes: Data collection, Refinement description

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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.