MolNFT v1 · #138764 · protein

Crystal structure of the Fab fragment of anti-hav antibody R10

5WTG · Fab light chain: “Crystal structure of the Fab fragment of anti-hav antibody R10”. X-ray diffraction, 9 pockets (best druggability 0.79). MolNFT v1 #138764 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5WTG
Type: protein
Length: 858 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Fab light chain; Fab heavy chain
Pockets: 9 · best druggability 0.79

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 54% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Fab light chain	protein	212	6% helix, 52% strand	—
B, D	Fab heavy chain	protein	217	4% helix, 55% strand	—

Pockets

9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	908	0.79	0.81	104	empty
2	1015	0.76	0.79	93	empty
3	287	0.58	0.78	33	empty
4	133	0.48	0.78	23	empty
5	129	0.45	0.77	23	empty

Interfaces

5 interfaces between chains.

C–D · 1999 Å² buried · 23 hydrogen bonds · protein-protein
A–B · 1917 Å² buried · 21 hydrogen bonds · protein-protein
B–C · 579 Å² buried · 11 hydrogen bonds · protein-protein
A–D · 479 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 175 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 8 disulfide (disulfide).

Compared structures

5WTG · Crystal structure of the Fab fragment of anti-HAV antibody R10 · the same entry in another collection · chain A against A, 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 5WTG · PDBe 5WTG

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