8BGK | pdb_00008bgk

NMR Structure of Big-defensin 5 from oyster Crassostrea gigas

PDB DOI: https://doi.org/10.2210/pdb8BGK/pdb
BMRB: 34767

Classification: ANTIMICROBIAL PROTEIN
Organism(s): Magallana gigas
Mutation(s): No
Membrane Protein: Yes OPM

Deposited: 2022-10-27 Released: 2022-12-07
Deposition Author(s): Loth, K., Asokan, A.
Funding Organization(s): Agence Nationale de la Recherche (ANR)

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 200
Conformers Submitted: 10
Selection Criteria: structures with the least restraint violations

wwPDB Validation 3D Report Full Report

Validation slider image for 8BGK

This is version 1.0 of the entry. See complete history.

Literature

Total synthesis and 3D structure determination of a highly hydrophobic antimicrobial Crassostrea gigas big defensin, enduring challenges rescue by a solubilizing tag

Asokan, A., Delmas, A.F., Aucagne, V., Loth, K., Meudal, H.

To be published.

Macromolecule Content

Total Structure Weight: 9.98 kDa
Atom Count: 703
Modeled Residue Count: 86
Deposited Residue Count: 86
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cg-BigDef5	A [auth B]	86	Magallana gigas	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A9X9ZA81 (Magallana gigas) Explore A0A9X9ZA81 Go to UniProtKB: A0A9X9ZA81
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A9X9ZA81
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
NLE Query on NLE	A [auth B]	L-PEPTIDE LINKING	C₆ H₁₃ N O₂		LEU
NLW Query on NLW	A [auth B]	L-PEPTIDE LINKING	C₆ H₁₄ N₂ O		LEU

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 200
Conformers Submitted: 10
Selection Criteria: structures with the least restraint violations

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-12-07

Deposition Author(s):

Funding Organization	Location	Grant Number
Agence Nationale de la Recherche (ANR)	France	ANR-19-CE18-0025

Revision History (Full details and data files)

Version 1.0: 2022-12-07
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.