7MP4 | pdb_00007mp4

Crystal structure of Epiphyas postvittana antennal carboxylesterase 24

PDB DOI: https://doi.org/10.2210/pdb7MP4/pdb

Classification: HYDROLASE
Organism(s): Epiphyas postvittana
Expression System: Trichoplusia ni
Mutation(s): No

Deposited: 2021-05-04 Released: 2022-05-11
Deposition Author(s): Hamiaux, C., Carraher, C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.43 Å
R-Value Free:
0.215 (Depositor), 0.216 (DCC)
R-Value Work:
0.180 (Depositor), 0.186 (DCC)
R-Value Observed:
0.182 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history.

Literature

Structure of an antennally-expressed carboxylesterase suggests lepidopteran odorant degrading enzymes are broadly tuned

Corcoran, J.A., Hamiaux, C., Faraone, N., Lofstedt, C., Carraher, C.

(2023) Curr Res Insect Sci 3: 100062

DOI: https://doi.org/10.1016/j.cris.2023.100062

Macromolecule Content

Total Structure Weight: 500.6 kDa
Atom Count: 34,862
Modeled Residue Count: 4,272
Deposited Residue Count: 4,448
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carboxylesterase-24	A, B, C, D, E A, B, C, D, E, F, G, H	556	Epiphyas postvittana	Mutation(s): 0 EC: 3.1.1.1
UniProt
Find proteins for A0A0K8TUN4 (Epiphyas postvittana) Explore A0A0K8TUN4 Go to UniProtKB: A0A0K8TUN4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0K8TUN4
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B Focus chain C Focus chain D Focus chain E Focus chain F Focus chain G Focus chain H
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	I, J, K, L, M I, J, K, L, M, N, O, P	5		N-Glycosylation	Interactions Focus chain I Focus chain J Focus chain K Focus chain L Focus chain M Focus chain N Focus chain O Focus chain P Interactions & Density Focus chain I Focus chain J Focus chain K Focus chain L Focus chain M Focus chain N Focus chain O Focus chain P
Glycosylation Resources
GlyTouCan: G42227JK GlyCosmos: G42227JK GlyGen: G42227JK

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.43 Å
R-Value Free: 0.215 (Depositor), 0.216 (DCC)
R-Value Work: 0.180 (Depositor), 0.186 (DCC)
R-Value Observed: 0.182 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.475	α = 78.31
b = 113.967	β = 70.18
c = 125.772	γ = 65.88

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
MoRDa	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

Deposition Data

Released Date: 2022-05-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2022-05-11
Type: Initial release
Version 1.1: 2022-12-14
Changes: Source and taxonomy
Version 1.2: 2023-06-21
Changes: Database references
Version 1.3: 2023-10-25
Changes: Data collection, Refinement description
Version 1.4: 2024-11-06
Changes: Database references, Structure summary

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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.