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Arbitrium receptor from a bacillus subtilis KATMIRA33 phage

Analyse Arbitrium receptor from a bacillus subtilis KATMIRA33 phage in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6S7L
Type: protein
Length: 784 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Arbitrium receptor; Gly-ile-val-arg-gly-ala
Pockets: 7 · best druggability 0.63

Structure

x-ray diffraction · 2 distinct chains · 72% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Arbitrium receptor	protein	386	74% helix, 0% strand	—
C, D	Gly-ile-val-arg-gly-ala	protein	6	0% helix, 0% strand	—

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	347	0.63	0.79	41	empty
2	292	0.61	0.79	42	empty
3	336	0.60	0.77	36	empty
4	110	0.50	0.81	18	empty
5	146	0.49	0.78	19	empty

Interfaces

3 interfaces between chains.

A–B · 1083 Å² buried · 13 hydrogen bonds · protein-protein
B–D · 625 Å² buried · 12 hydrogen bonds · protein-protein
A–C · 619 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

6S7L · Arbitrium receptor from a Bacillus subtilis Katmira33 phage · 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 6S7L · PDBe 6S7L

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