MolNFT v1 · #152908 · protein

Crystal structure of semet apo SH3BP5 (P41)

6IXF · SH3 domain-binding protein 5: “Crystal structure of semet apo SH3BP5 (P41)”. X-ray diffraction, 2 pockets (best druggability 0.59). MolNFT v1 #152908 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6IXF
Type: protein
Length: 443 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: SH3 domain-binding protein 5
UniProt: O60239
Pockets: 2 · best druggability 0.59

Structure

x-ray diffraction · 2 distinct chains · 93% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	SH3 domain-binding protein 5	protein	221	95% helix, 0% strand	O60239
B	SH3 domain-binding protein 5	protein	222	91% helix, 0% strand	O60239

Pockets

2 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	415	0.59	0.75	38	empty
2	288	0.55	0.76	33	empty

Interfaces

1 interface between chains.

A–B · 1387 Å² buried · 18 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 10 modified (engineered).

Compared structures

6IXF · Crystal structure of SeMet apo SH3BP5 (P41) · the same entry in another collection · chain A against A, TM-score 1.00
O60239 · AlphaFold monomer V2.0 prediction for SH3 domain-binding protein 5 (O60239) · a predicted model of the same protein · chain B against A, TM-score 0.84

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 O60239
Elsewhere: RCSB PDB 6IXF · PDBe 6IXF · UniProt O60239

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