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), 0.220 (DCC)
R-Value Work:
0.180 (Depositor), 0.190 (DCC)
R-Value Observed:
0.182 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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
Modelled Residue Count: 4,272
Deposited Residue Count: 4,448
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

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% Identity50% Identity70% Identity90% Identity95% Identity100% 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 LOADING

Oligosaccharides

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D 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), 0.220 (DCC)
R-Value Work: 0.180 (Depositor), 0.190 (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

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.