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Crystal structure of rhodostomin

Analyse Crystal structure of rhodostomin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4RQG
Type: protein
Length: 132 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Disintegrin rhodostomin
UniProt: P30403
Pockets: 2 · best druggability 0.63

Structure

x-ray diffraction · 1 distinct chain · 0% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Disintegrin rhodostomin	protein	66	0% helix, 17% strand	P30403

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	329	0.63	0.79	39	empty
2	89	0.33	0.74	15	empty

Interfaces

1 interface between chains.

A–B · 600 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide (disulfide).

Compared structures

4RQG · Crystal structure of Rhodostomin · the same entry in another collection · chain A against A, TM-score 1.00
P30403 · AlphaFold monomer V2.0 prediction for zinc METALLOPROTEINASE/DISINTEGRIN (P30403) · a predicted model of the same protein · chain A against A, TM-score 0.86

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 P30403
Elsewhere: RCSB PDB 4RQG · PDBe 4RQG · UniProt P30403

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