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Cryo-EM structure of an extracellular contractile injection system, pvc baseplate in extended state (reconstructed with C3 symmetry)

Analyse Cryo-EM structure of an extracellular contractile injection system, pvc… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6J0M
Type: protein
Length: 1,605 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: PVC8
Pockets: 20 · best druggability 0.74

Structure

electron microscopy · 1 distinct chain · 10% helix, 40% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	PVC8	protein	535	10% helix, 40% strand	—

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	70	0.74	0.97	23	empty
2	66	0.71	0.97	26	empty
3	725	0.70	0.77	73	empty
4	543	0.69	0.79	56	empty
5	611	0.69	0.78	63	empty

Interfaces

3 interfaces between chains.

A–B · 5563 Å² buried · 104 hydrogen bonds · protein-protein
B–C · 5541 Å² buried · 105 hydrogen bonds · protein-protein
A–C · 5538 Å² buried · 101 hydrogen bonds · protein-protein

Compared structures

6J0M · Cryo-EM Structure of an Extracellular Contractile Injection System, PVC baseplate in… · 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
Elsewhere: RCSB PDB 6J0M · PDBe 6J0M

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