MolNFT v1 · #162339 · protein

Crystal structure of the receptor binding protein (GP15) of listeria phage psa

6R5W · GP15 protein: “Crystal structure of the receptor binding protein (GP15) of listeria phage psa”. X-ray diffraction, 1 ligand (CD), 1 pocket (best druggability 0.69). MolNFT v1 #162339 on GenesisL1: 3D structure, binding sites and…

PDB: 6R5W
Type: protein
Length: 508 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: GP15 protein
UniProt: Q8W5Z4
Ligands: CD
Pockets: 1 · best druggability 0.69

Structure

x-ray diffraction · 3 distinct chains · 26% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	GP15 protein	protein	171	26% helix, 37% strand	Q8W5Z4
B	GP15 protein	protein	168	26% helix, 37% strand	Q8W5Z4
C	GP15 protein	protein	169	26% helix, 37% strand	Q8W5Z4

Ligands and binding sites

CD · Cadmium ion · metal · 9 copies · chains A, B, C
1PE · Pentaethylene glycol · additive · 2 copies · chains A, B
ACT · Acetate ion · additive · 2 copies · chains B, C

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	61	0.69	0.96	25	empty

Interfaces

3 interfaces between chains.

B–C · 2335 Å² buried · 30 hydrogen bonds · protein-protein
A–C · 2322 Å² buried · 23 hydrogen bonds · protein-protein
A–B · 2258 Å² buried · 29 hydrogen bonds · protein-protein

Compared structures

6R5W · Crystal structure of the receptor binding protein (gp15) of Listeria phage PSA · 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 Q8W5Z4
Elsewhere: RCSB PDB 6R5W · PDBe 6R5W · UniProt Q8W5Z4

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