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Structure of the type VI secretion system tssk-tssf-tssg baseplate subcomplex revealed by cryo-electron microscopy - full MAP sharpened

Analyse Structure of the type VI secretion system tssk-tssf-tssg baseplate subcomplex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6N38
Type: protein
Length: 3,137 residues
Chains: 11
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative type VI secretion protein; Unassigned protein
UniProt: D3GUX3, D3GUX4, D3GU39
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 9 distinct chains · 32% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
I	Putative type VI secretion protein	protein	528	25% helix, 35% strand	D3GUX3
G	Putative type VI secretion protein	protein	240	33% helix, 22% strand	D3GUX4
H	Putative type VI secretion protein	protein	532	23% helix, 34% strand	D3GUX3
K	Unassigned protein	protein	21	86% helix, 0% strand	—
L	Unassigned protein	protein	18	89% helix, 0% strand	—
A, D, C	Putative type VI secretion protein	protein	299	37% helix, 23% strand	D3GU39
B	Putative type VI secretion protein	protein	300	36% helix, 24% strand	D3GU39
E	Putative type VI secretion protein	protein	301	35% helix, 24% strand	D3GU39
F	Putative type VI secretion protein	protein	300	37% helix, 24% strand	D3GU39

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	328	0.85	0.95	36	empty
2	334	0.85	0.95	29	empty
3	306	0.85	0.95	35	empty
4	313	0.84	0.94	29	empty
5	491	0.82	0.89	51	empty

Interfaces

26 interfaces between chains.

I–G · 2945 Å² buried · 21 hydrogen bonds · protein-protein
A–C · 2729 Å² buried · 25 hydrogen bonds · protein-protein
A–B · 2712 Å² buried · 27 hydrogen bonds · protein-protein
E–F · 2701 Å² buried · 28 hydrogen bonds · protein-protein
D–F · 2676 Å² buried · 27 hydrogen bonds · protein-protein

Compared structures

6N38 · Structure of the type VI secretion system TssK-TssF-TssG baseplate subcomplex revealed by… · the same entry in another collection · chain I against I, 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 D3GUX3
Every structure of UniProt D3GUX4
Every structure of UniProt D3GU39
Elsewhere: RCSB PDB 6N38 · PDBe 6N38 · UniProt D3GUX3 · UniProt D3GUX4 · UniProt D3GU39

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