4LMT | pdb_00004lmt

Structure of The N-terminal domain of Coronavirus Nucleocapsid Protein complexed with NSC663284

PDB DOI: https://doi.org/10.2210/pdb4LMT/pdb

Classification: RNA BINDING PROTEIN
Organism(s): Human coronavirus OC43
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-07-11 Released: 2014-07-16
Deposition Author(s): Lin, S.Y., Liu, C.L., Hou, M.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.71 Å
R-Value Free:
0.279 (Depositor), 0.278 (DCC)
R-Value Work:
0.236 (Depositor), 0.237 (DCC)
R-Value Observed:
0.240 (Depositor)

Starting Model: experimental
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Literature

Domain of Coronavirus Nucleocapsid Protein complexed with NSC663284

Lin, S.Y., Liu, C.L., Hou, M.H.

To be published.

Macromolecule Content

Total Structure Weight: 15.76 kDa
Atom Count: 1,200
Modeled Residue Count: 134
Deposited Residue Count: 136
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoprotein	A	136	Human coronavirus OC43	Mutation(s): 0 Gene Names: N
UniProt
Find proteins for P33469 (Human coronavirus OC43) Explore P33469 Go to UniProtKB: P33469
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P33469
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CQD Query on CQD Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	6-chloro-7-{[2-(morpholin-4-yl)ethyl]amino}quinoline-5,8-dione C₁₅ H₁₆ Cl N₃ O₃ BMKPVDQDJQWBPD-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.71 Å
R-Value Free: 0.279 (Depositor), 0.278 (DCC)
R-Value Work: 0.236 (Depositor), 0.237 (DCC)
R-Value Observed: 0.240 (Depositor)

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.911	α = 90
b = 81.911	β = 90
c = 42.873	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-07-16

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-07-16
Type: Initial release
Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, 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.