MolNFT v1 · #168099 · protein

Crystal structure of Fab RSB1

6W5D · RSB1 Fab heavy chain: “Crystal structure of Fab RSB1”. X-ray diffraction, 6 pockets (best druggability 0.63). MolNFT v1 #168099 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6W5D
Type: protein
Length: 861 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RSB1 Fab heavy chain; RSB1 Fab light chain
Pockets: 6 · best druggability 0.63

Structure

x-ray diffraction · 3 distinct chains · 7% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	RSB1 Fab heavy chain	protein	221	7% helix, 49% strand	—
L, B	RSB1 Fab light chain	protein	213	7% helix, 48% strand	—
A	RSB1 Fab heavy chain	protein	214	6% helix, 53% strand	—

Pockets

6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	602	0.63	0.74	59	empty
2	585	0.62	0.74	79	empty
3	365	0.60	0.77	53	empty
4	477	0.58	0.73	52	empty
5	172	0.49	0.77	36	empty

Interfaces

5 interfaces between chains.

H–L · 1745 Å² buried · 14 hydrogen bonds · protein-protein
A–B · 1732 Å² buried · 18 hydrogen bonds · protein-protein
L–A · 225 Å² buried · 1 hydrogen bond · protein-protein
L–B · 113 Å² buried · 0 hydrogen bonds · protein-protein
H–B · 99 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 8 disulfide (disulfide).

Compared structures

6W5D · Crystal Structure of Fab RSB1 · the same entry in another collection · chain H against H, 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 6W5D · PDBe 6W5D

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.