2M9Q | pdb_00002m9q

NMR structure of an inhibitor bound dengue NS3 protease

PDB DOI: https://doi.org/10.2210/pdb2M9Q/pdb
BMRB: 19306

Classification: HYDROLASE/HYDROLASE INHIBITOR
Organism(s): Dengue virus 2 Thailand/0168/1979
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-06-18 Released: 2014-07-09
Deposition Author(s): Gibbs, A., Steele, R., Tounge, B.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 200
Conformers Submitted: 10
Selection Criteria: structures with the lowest energy

wwPDB Validation 3D Report Full Report

Validation slider image for 2M9Q

This is version 2.0 of the entry. See complete history.

Literature

NMR structure of an inhibitor bound dengue NS3 protease provides new insights into the NS2B NS3 ligand interactions

Gibbs, A., Steele, R., Tounge, B.

To be published.

Macromolecule Content

Total Structure Weight: 26.08 kDa
Atom Count: 1,836
Modeled Residue Count: 245
Deposited Residue Count: 245
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine protease subunit NS2B, Serine protease NS3	A	240	Dengue virus 2 Thailand/0168/1979	Mutation(s): 0 EC: 3.4.21.91 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.6.4.13 (PDB Primary Data)
UniProt
Find proteins for P14337 (Dengue virus type 2 (isolate Thailand/0168/1979)) Explore P14337 Go to UniProtKB: P14337
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P14337
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine protease inhibitor	B	5	N/A	Mutation(s): 0

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
NLE Query on NLE	B	L-PEPTIDE LINKING	C₆ H₁₃ N O₂		LEU

Biologically Interesting Molecules (External Reference)

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_001171 Query on PRD_001171	B	Serine protease inhibitor BEZ-NLE-LYS-ARG-M9P	Peptide-like / Enzyme inhibitor		Interactions Focus chain B

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 200
Conformers Submitted: 10
Selection Criteria: structures with the lowest energy

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2014-07-09

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-07-09
Type: Initial release
Version 1.1: 2023-06-14
Changes: Data collection, Database references, Derived calculations, Other
Version 2.0: 2023-11-15
Changes: Atomic model, Data collection, Derived calculations

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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.