8JA0

Cryo-EM structure of the NmeCas9-sgRNA-AcrIIC4 ternary complex

PDB DOI: https://doi.org/10.2210/pdb8JA0/pdb
NAKB: 8JA0
EM Map EMD-36123: EMDB EMDataResource

Classification: RNA BINDING PROTEIN/RNA
Organism(s): Neisseria meningitidis, Haemophilus parainfluenzae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-05-05 Released: 2023-08-09
Deposition Author(s): Yin, H., Li, Z., Yu, G.M., Li, X.Z.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.52 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Cryo-EM structure of the NmeCas9-sgRNA-AcrIIC4 ternary complex

Yin, H., Li, Z., Yu, G.M., Li, X.Z.

To be published.

Macromolecule Content

Total Structure Weight: 171.97 kDa
Atom Count: 11,291
Modelled Residue Count: 1,229
Deposited Residue Count: 1,287
Unique protein chains: 2
Unique nucleic acid chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR-associated endonuclease Cas9	A	1,082	Neisseria meningitidis	Mutation(s): 0 Gene Names: cas9, NMV_1993 EC: 3.1
UniProt
Find proteins for C9X1G5 (Neisseria meningitidis serogroup C (strain 8013)) Explore C9X1G5 Go to UniProtKB: C9X1G5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	C9X1G5
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	B [auth D]	88	Haemophilus parainfluenzae	Mutation(s): 0 Gene Names: NCTC10672_00033, NCTC10672_02354
UniProt
Find proteins for A0A377JKY9 (Haemophilus parainfluenzae) Explore A0A377JKY9 Go to UniProtKB: A0A377JKY9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A377JKY9
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Length	Organism	Image
RNA (117-MER)	C [auth B]	117	Neisseria meningitidis
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.52 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2023-08-09

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2023-08-09
Type: Initial release
Version 1.1: 2024-07-03
Changes: Data collection

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.