MolNFT v1 · #135480 · protein + DNA + RNA

CRISPR RNA-guided surveillance complex

5U0A · CRISPR-associated protein, CSE3 family: “CRISPR RNA-guided surveillance complex”. Electron microscopy, 20 pockets (best druggability 0.90). MolNFT v1 #135480 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5U0A
Type: protein + DNA + RNA
Length: 3,473 residues
Chains: 14
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CRISPR-associated protein, CSE3 family; CRISPR-associated protein, CSE1 family…
UniProt: Q47PJ5, Q47PJ1, Q47PJ3, Q47PJ2, Q47PJ4
Pockets: 20 · best druggability 0.90

Structure

electron microscopy · 12 distinct chains · 40% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	CRISPR-associated protein, CSE3 family	protein	192	17% helix, 20% strand	Q47PJ5
C	CRISPR-associated protein, CSE1 family	protein	503	41% helix, 13% strand	Q47PJ1
D	CRISPR-associated protein, CSE4 family	protein	260	32% helix, 26% strand	Q47PJ3
E, F	CRISPR-associated protein, CSE4 family	protein	367	38% helix, 23% strand	Q47PJ3
G, H	CRISPR-associated protein, CSE4 family	protein	366	38% helix, 21% strand	Q47PJ3
I	CRISPR-associated protein, CSE4 family	protein	329	42% helix, 19% strand	Q47PJ3
J	CSE2	protein	173	71% helix, 0% strand	Q47PJ2
K	Crrna	rna	59	—	—
L	CSE2	protein	165	79% helix, 0% strand	Q47PJ2
M	Target strand	dna	50	—	—
N	CRISPR-associated protein, CAS5E family	protein	241	17% helix, 33% strand	Q47PJ4
O	Nontarget strand	dna	35	—	—

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	1082	0.90	0.92	121	empty
2	1026	0.83	0.84	87	empty
3	726	0.82	0.85	87	empty
4	318	0.81	0.91	40	empty
5	476	0.80	0.88	65	empty

Interfaces

52 interfaces between chains.

E–F · 2158 Å² buried · 29 hydrogen bonds · protein-protein
F–G · 2152 Å² buried · 32 hydrogen bonds · protein-protein
G–H · 2145 Å² buried · 30 hydrogen bonds · protein-protein
D–H · 2134 Å² buried · 39 hydrogen bonds · protein-protein
D–N · 2124 Å² buried · 26 hydrogen bonds · protein-protein

Compared structures

5U0A · CRISPR RNA-guided surveillance complex · the same entry in another collection · chain A against A, TM-score 1.00

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 Q47PJ5
Every structure of UniProt Q47PJ1
Every structure of UniProt Q47PJ3
Every structure of UniProt Q47PJ2
Every structure of UniProt Q47PJ4
Elsewhere: RCSB PDB 5U0A · PDBe 5U0A · UniProt Q47PJ5 · UniProt Q47PJ1 · UniProt Q47PJ3 · UniProt Q47PJ2 · UniProt Q47PJ4

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