8H7Q | pdb_00008h7q

Cryo-EM structure of Synechocystis sp. PCC6714 Cascade at 3.8 angstrom resolution

PDB DOI: https://doi.org/10.2210/pdb8H7Q/pdb
EM Map EMD-34524: EMDB EMDataResource
NAKB: 8H7Q

Classification: RNA BINDING PROTEIN
Organism(s): Synechocystis sp. PCC 6714, synthetic construct
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2022-10-20 Released: 2023-10-25
Deposition Author(s): Xiao, Y., Lu, M., Yu, C., Zhang, Y.
Funding Organization(s): National Natural Science Foundation of China (NSFC), Ministry of Science and Technology (MoST, China)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8H7Q

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

Literature

Cryo-EM structure of Synechocystis sp. PCC6714 Cascade at 3.8 angstrom resolution

Xiao, Y., Lu, M., Yu, C., Zhang, Y.

To be published.

Macromolecule Content

Total Structure Weight: 346.92 kDa
Atom Count: 22,884
Modeled Residue Count: 2,734
Deposited Residue Count: 2,922
Unique protein chains: 3
Unique nucleic acid chains: 3

Macromolecules

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR associated protein Cas8	D [auth B] E [auth C] F [auth E] G [auth F] H [auth G] D [auth B], E [auth C], F [auth E], G [auth F], H [auth G], I [auth H], J [auth I]	301	Synechocystis sp. PCC 6714	Mutation(s): 0 Gene Names: D082_50510
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR associated protein Cas11b	K [auth J], L [auth K], M [auth N], N [auth O]	124	Synechocystis sp. PCC 6714	Mutation(s): 0 Gene Names: D082_50500
Entity Groups
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Reference Sequence

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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR associated protein Cas5	O [auth A]	237	Synechocystis sp. PCC 6714	Mutation(s): 0 Gene Names: D082_50520
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 1
CRISPR RNA	A [auth D]	36	Synechocystis sp. PCC 6714
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Reference Sequence

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(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 2
Target DNA	B [auth L]	35	synthetic construct
Sequence Annotations Expand
Reference Sequence

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Molecule	Chains	Length	Organism	Image
Entity ID: 3
Non target DNA	C [auth M]	11	synthetic construct
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2023-10-25

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31970547
Ministry of Science and Technology (MoST, China)	China	2018YFA0902000

Revision History (Full details and data files)

Version 1.0: 2023-10-25
Type: Initial release
Version 1.1: 2025-05-14
Changes: Data collection, Structure summary

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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.