MolNFT v1 · #129630 · protein

Crystal structure of anti-ALPHAVBETA3 integrin Fab LM609

5OPY · Heavy chain of LM609 Fab (antigen-binding fragment): “Crystal structure of anti-ALPHAVBETA3 integrin Fab LM609”. X-ray diffraction, 4 pockets (best druggability 0.67). MolNFT v1 #129630 on GenesisL1: 3D structure, binding sites and…

PDB: 5OPY
Type: protein
Length: 426 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Heavy chain of LM609 Fab (antigen-binding fragment); Light chain of LM609 Fab…
Pockets: 4 · best druggability 0.67

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 52% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Heavy chain of LM609 Fab (antigen-binding fragment)	protein	214	8% helix, 53% strand	—
L	Light chain of LM609 Fab (antigen-binding fragment)	protein	212	6% helix, 51% strand	—

Pockets

4 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	644	0.67	0.76	54	empty
2	92	0.34	0.74	19	empty
3	56	0.33	0.77	14	empty
4	65	0.30	0.74	16	empty

Interfaces

1 interface between chains.

H–L · 1840 Å² buried · 20 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5OPY · Crystal structure of anti-alphaVbeta3 integrin Fab LM609 · the same entry in another collection · chain L against L, 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
Elsewhere: RCSB PDB 5OPY · PDBe 5OPY

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