MolNFT v1 · #125406 · protein

Crystal structure of the pH domain of murine kindlin-3

5L81 · Fermitin family homolog 3: “Crystal structure of the pH domain of murine kindlin-3”. X-ray diffraction, 1 ligand (NA), 2 pockets (best druggability 0.55). MolNFT v1 #125406 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 5L81
Type: protein
Length: 265 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Fermitin family homolog 3
UniProt: Q8K1B8
Ligands: NA
Pockets: 2 · best druggability 0.55

Structure

x-ray diffraction · 2 distinct chains · 24% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Fermitin family homolog 3	protein	133	23% helix, 38% strand	Q8K1B8
B	Fermitin family homolog 3	protein	132	26% helix, 35% strand	Q8K1B8

Ligands and binding sites

NA · Sodium ion · metal · chains B

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

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	86	0.55	0.86	25	empty
2	54	0.29	0.75	17	empty

Interfaces

1 interface between chains.

A–B · 984 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

5L81 · Crystal structure of the PH domain of murine kindlin-3 · the same entry in another collection · chain A against A, TM-score 1.00
Q8K1B8 · AlphaFold monomer V2.0 prediction for fermitin family homolog 3 (Q8K1B8) · a predicted model of the same protein · chain A against A, TM-score 0.95

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 Q8K1B8
Elsewhere: RCSB PDB 5L81 · PDBe 5L81 · UniProt Q8K1B8

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