Research workbench

T6SS protein tssm C-terminal domain (869-1107) from eaec

Analyse T6SS protein tssm C-terminal domain (869-1107) from eaec in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4Y7L
Type: protein
Length: 474 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Type VI secretion protein icmf
UniProt: A0A070IVV8
Ligands: ZN
Pockets: 3 · best druggability 0.57

Structure

x-ray diffraction · 2 distinct chains · 30% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Type VI secretion protein icmf	protein	235	31% helix, 30% strand	A0A070IVV8
B	Type VI secretion protein icmf	protein	239	30% helix, 31% strand	A0A070IVV8

Ligands and binding sites

ZN · Zinc ion · metal · 4 copies · chains A, B
GOL · Glycerol · additive · 3 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	229	0.57	0.79	38	GOL
2	315	0.56	0.76	41	empty
3	157	0.46	0.76	24	ZN

Interfaces

1 interface between chains.

A–B · 840 Å² buried · 18 hydrogen bonds · protein-protein

Compared structures

4Y7L · T6SS protein TssM C-terminal domain (869-1107) from EAEC · 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 A0A070IVV8
Elsewhere: RCSB PDB 4Y7L · PDBe 4Y7L · UniProt A0A070IVV8

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