MolNFT v1 · #173506 · protein

Vibrio cholerae PARD2 antitoxin

7B22 · Antitoxin pard: “Vibrio cholerae PARD2 antitoxin”. X-ray diffraction, 7 pockets (best druggability 0.50). MolNFT v1 #173506 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7B22
Type: protein
Length: 392 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Antitoxin pard
UniProt: P58093
Pockets: 7 · best druggability 0.50

Structure

x-ray diffraction · 1 distinct chain · 65% helix, 6% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H	Antitoxin pard	protein	49	65% helix, 6% strand	P58093

Pockets

7 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	87	0.50	0.82	24	empty
2	88	0.44	0.80	17	empty
3	89	0.44	0.80	17	empty
4	90	0.44	0.79	21	empty
5	56	0.42	0.82	19	empty

Interfaces

13 interfaces between chains.

C–D · 1482 Å² buried · 17 hydrogen bonds · protein-protein
G–H · 1480 Å² buried · 16 hydrogen bonds · protein-protein
E–F · 1465 Å² buried · 15 hydrogen bonds · protein-protein
A–B · 1410 Å² buried · 16 hydrogen bonds · protein-protein
B–C · 476 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

7B22 · Vibrio cholerae ParD2 Antitoxin · the same entry in another collection · chain H against H, TM-score 1.00
P58093 · AlphaFold monomer V2.0 prediction for antitoxin pard (P58093) · a predicted model of the same protein · chain A against A, TM-score 0.87

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 P58093
Elsewhere: RCSB PDB 7B22 · PDBe 7B22 · UniProt P58093

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