Research workbench

Cryo-EM structure of type I-F CRISPR crrna-guided csy surveillance complex

Analyse Cryo-EM structure of type I-F CRISPR crrna-guided csy surveillance complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6B45
Type: protein + RNA
Length: 2,939 residues
Chains: 10
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CRISPR-associated protein CSY1; CRISPR-associated protein CSY2; CRISPR-associated protein…
EC: 3.1.-.-
UniProt: Q02ML9, Q02MM0, Q02MM1, Q02MM2
Pockets: 20 · best druggability 0.83

Structure

electron microscopy · 8 distinct chains · 23% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	CRISPR-associated protein CSY1	protein	424	33% helix, 5% strand	Q02ML9
B	CRISPR-associated protein CSY2	protein	305	21% helix, 16% strand	Q02MM0
C	CRISPR-associated protein CSY3	protein	293	22% helix, 13% strand	Q02MM1
D, G, H	CRISPR-associated protein CSY3	protein	333	19% helix, 21% strand	Q02MM1
E	CRISPR-associated protein CSY3	protein	334	21% helix, 18% strand	Q02MM1
F	CRISPR-associated protein CSY3	protein	335	21% helix, 21% strand	Q02MM1
L	CRISPR-associated endonuclease CAS6/CSY4 (EC 3.1.-.-)	protein	189	16% helix, 6% strand	Q02MM2
M	Pseudomonas aeruginosa strain SMC4485 CRISPR repeat sequence	rna	60	—	—

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	929	0.83	0.85	91	empty
2	901	0.80	0.83	98	empty
3	898	0.79	0.82	94	empty
4	1009	0.79	0.81	104	empty
5	1041	0.79	0.81	95	empty

Interfaces

24 interfaces between chains.

A–B · 3317 Å² buried · 32 hydrogen bonds · protein-protein
F–G · 2127 Å² buried · 26 hydrogen bonds · protein-protein
E–F · 2053 Å² buried · 27 hydrogen bonds · protein-protein
D–E · 2049 Å² buried · 26 hydrogen bonds · protein-protein
G–H · 2027 Å² buried · 28 hydrogen bonds · protein-protein

Compared structures

6B45 · Cryo-EM structure of Type I-F CRISPR crRNA-guided Csy surveillance complex · the same entry in another collection · chain M against M, TM-score 1.00
Q02MM1 · AlphaFold monomer V2.0 prediction for CRISPR-associated protein CSY3 (Q02MM1) · a predicted model of the same protein · chain G against A, TM-score 0.97

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q02ML9
Every structure of UniProt Q02MM0
Every structure of UniProt Q02MM1
Every structure of UniProt Q02MM2
Elsewhere: RCSB PDB 6B45 · PDBe 6B45 · UniProt Q02ML9 · UniProt Q02MM0 · UniProt Q02MM1 · UniProt Q02MM2

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