RCSB PDB: Search

Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.

Help

Help

RCSB PDB

Deposit
- PDBx/mmCIF file
- pdb_extract
- SF-Tool
- Ligand Expo
- MAXIT
- Validation Server
- Validation API
- Information for Journals
- Validation Task Forces
- wwPDB OneDep System
- PDB-IHM
Search
Visualize
Analyze
Download
Learn
- Training Courses
- Guide to PDB Data
- Molecule of the Month
- Educational Resources
- Curricula
- Browse
- News
- SciArt Galleries
- Irving Geis
- David Goodsell
About
Careers
COVID-19

234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Structure Keywords HAS EXACT PHRASE "IMMUNE SYSTEM/DNA/RNA"

MyPDB Login

Search API

Advanced Search Query Builder

Help

Full Text

Structure Attributes

Help

NOT

Count

Add Subquery

Chemical Attributes

Sequence Similarity

Sequence Motif

Structure Similarity

Structure Motif

Chemical Similarity

Return

grouped by

Include Computed Structure Models (CSM)

Count

Clear

Search Summary

This query matches 8 Structures.

Refinements

Structure Determination Methodology

experimental (8)

Scientific Name of Source Organism

	synthetic construct (5)
	Streptococcus pyogenes (4)
	Escherichia coli (2)
	Candidatus Cloacimonetes bacterium ADurb.Bin088 (1)
	Escherichia coli K-12 (1)
	Lambdavirus lambda (1)
	Proteus penneri (1)
	Pseudomonas aeruginosa (1)

Taxonomy

	Bacteria (7)
	other sequences (5)
	Duplodnaviria (1)

Experimental Method

	ELECTRON MICROSCOPY (6)
	X-RAY DIFFRACTION (2)

Polymer Entity Type

	DNA (8)
	Protein (8)
	RNA (8)

Refinement Resolution (Å)

	2.5 - 3.0 (2)
	3.0 - 3.5 (4)
	3.5 - 4.0 (1)
	4.0 - 4.5 (1)

Release Date

	2010 - 2014 (1)
	2020 - 2024 (7)

Enzyme Classification Name

Hydrolases (6)

Symmetry Type

Asymmetric (8)

AllSelected

1 to 8 of 8 Structures

Page 1 of 1

Sort by

Explore in 3D

4QYZ \| pdb_00004qyz	Download File View File

Crystal structure of a CRISPR RNA-guided surveillance complex, Cascade, bound to a ssDNA target

Mulepati, S., Bailey, S.

(2014) Science 345: 1479-1484

Released	2014-09-03
Method	X-RAY DIFFRACTION 3.0303 Å
Organisms	Escherichia coli Escherichia coli K-12 Lambdavirus lambda
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	ZN

Explore in 3D

6WHI \| pdb_00006whi	Download File View File

Cryo-electron microscopy structure of the type I-F CRISPR RNA-guided surveillance complex bound to the anti-CRISPR AcrIF9

Hirschi, M., Santiago-Frangos, A., Wilkinson, R., Golden, S.M., Wiedenheft, B., Lander, G.

(2020) Nat Commun 11: 2730-2730

Released	2020-05-13
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Proteus penneri Pseudomonas aeruginosa
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3

Explore in 3D

7S4U \| pdb_00007s4u	Download File View File

Cryo-EM structure of Cas9 in complex with 12-14MM DNA substrate, 5 minute time-point

Bravo, J.P.K., Taylor, D.W., Liu, M.S., Johnson, K.A.

(2022) Nature 603: 343-347

Released	2022-03-02
Method	ELECTRON MICROSCOPY 3.56 Å
Organisms	Streptococcus pyogenes synthetic construct
Macromolecule	CRISPR-associated endonuclease Cas9/Csn1 (protein) Non-target strand (nucleic acid) Target strand (nucleic acid) gRNA (nucleic acid)

Explore in 3D

7S4V \| pdb_00007s4v	Download File View File

Cas9 bound to 12-14MM DNA, 60 min time-point, kinked conformation

Bravo, J.P.K., Taylor, D.W., Liu, M.S., Johnson, K.A.

(2022) Nature 603: 343-347

Released	2022-03-02
Method	ELECTRON MICROSCOPY 3.28 Å
Organisms	Streptococcus pyogenes synthetic construct
Macromolecule	CRISPR-associated endonuclease Cas9/Csn1 (protein) NTS (nucleic acid) TS (nucleic acid) gRNA (nucleic acid)

Explore in 3D

7S4X \| pdb_00007s4x	Download File View File

Cas9:gRNA in complex with 18-20MM DNA, 1 minute time-point, kinked active conformation

Bravo, J.P.K., Taylor, D.W., Liu, M.S., Johnson, K.A.

(2022) Nature 603: 343-347

Released	2022-03-02
Method	ELECTRON MICROSCOPY 2.76 Å
Organisms	Streptococcus pyogenes synthetic construct
Macromolecule	CRISPR-associated endonuclease Cas9/Csn1 (protein) NTS (nucleic acid) TS (nucleic acid) gRNA (nucleic acid)
Unique Ligands	MG

Explore in 3D

8U3Y \| pdb_00008u3y	Download File View File

SpG Cas9 with NGG PAM DNA target

Bravo, J.P.K., Hibshman, G.N., Taylor, D.W.

(2024) Nat Commun 15: 3663-3663

Released	2024-05-01
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Streptococcus pyogenes synthetic construct
Macromolecule	CRISPR-associated endonuclease Cas9/Csn1 (protein) DNA (5'-D(PCPGPTPTPTPGPTPAPCPTPCPCPAPGPCPG)-3') (nucleic acid) DNA (5'-D(PTPCPTPCPAPTPCPTPTPTPAPTPGPCPGPTPC)-3') (nucleic acid) DNA (5'-D(PTPGPGPAPGPTPAPCPAPAPAPCPG)-3') (nucleic acid) RNA (98-MER) (nucleic acid)
Unique Ligands	MG

Explore in 3D

8ZP9 \| pdb_00008zp9	Download File View File

Cryo-EM structure of Cas5-HNH Cascade bound with sDNA, Conf2

Liu, Y.N., Wang, L., Zhang, H., Zhu, H.

To be published

Released	2024-12-11
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Candidatus Cloacimonetes bacterium ADurb.Bin088 Escherichia coli
Macromolecule	CRISPR system Cascade subunit CasC (protein) CRISPR system Cascade subunit CasD (protein) DNA (60-MER) (nucleic acid) RNA (61-MER) (nucleic acid)

Explore in 3D

7TQB \| pdb_00007tqb	Download File View File

Crystal structure of monoclonal S9.6 Fab bound to DNA-RNA hybrid

Bou-Nader, C., Zhang, J.

(2022) Nat Commun 13: 1641-1641

Released	2022-03-30
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	synthetic construct
Macromolecule	FAB S9.6 Heavy Chain (protein) FAB S9.6 Light Chain (protein) DNA (nucleic acid) RNA (nucleic acid)
Unique Ligands	GOL

1 to 8 of 8 Structures

Page 1 of 1

Sort by

About
About Us
Citing Us
Publications
Team
Careers
Usage & Privacy

Support
Contact Us
Help
Website FAQ
Glossary
Service Status

RCSB PDB is hosted by

RCSB PDB is a member of the

RCSB Partners
Nucleic Acid Knowledgebase

wwPDB Partners
RCSB PDB
PDBe
PDBj
BMRB
EMDB

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.

4QYZ | pdb_00004qyz

Crystal structure of a CRISPR RNA-guided surveillance complex, Cascade, bound to a ssDNA target

6WHI | pdb_00006whi

Cryo-electron microscopy structure of the type I-F CRISPR RNA-guided surveillance complex bound to the anti-CRISPR AcrIF9

7S4U | pdb_00007s4u

Cryo-EM structure of Cas9 in complex with 12-14MM DNA substrate, 5 minute time-point

7S4V | pdb_00007s4v

Cas9 bound to 12-14MM DNA, 60 min time-point, kinked conformation

7S4X | pdb_00007s4x

Cas9:gRNA in complex with 18-20MM DNA, 1 minute time-point, kinked active conformation

8U3Y | pdb_00008u3y

SpG Cas9 with NGG PAM DNA target

8ZP9 | pdb_00008zp9

Cryo-EM structure of Cas5-HNH Cascade bound with sDNA, Conf2

7TQB | pdb_00007tqb

Crystal structure of monoclonal S9.6 Fab bound to DNA-RNA hybrid

Prepare Data

Validate Data

Deposit Data

Help and Resources

Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

4QYZ | pdb_00004qyz

6WHI | pdb_00006whi

7S4U | pdb_00007s4u

7S4V | pdb_00007s4v

7S4X | pdb_00007s4x

8U3Y | pdb_00008u3y

8ZP9 | pdb_00008zp9

7TQB | pdb_00007tqb