MolNFT v1 · #121635 · protein

Crystal structure of human germline antibody IGHV3-23/IGKV1-39

5I19 · Fab light chain: “Crystal structure of human germline antibody IGHV3-23/IGKV1-39”. X-ray diffraction, 5 pockets (best druggability 0.60). MolNFT v1 #121635 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5I19
Type: protein
Length: 434 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Fab light chain; Fab heavy chain
Pockets: 5 · best druggability 0.60

Structure

x-ray diffraction · 2 distinct chains · 8% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
L	Fab light chain	protein	213	6% helix, 50% strand	—
H	Fab heavy chain	protein	221	10% helix, 51% strand	—

Pockets

5 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	516	0.60	0.74	51	empty
2	169	0.46	0.75	28	empty
3	105	0.39	0.76	19	empty
4	52	0.30	0.76	11	empty
5	56	0.27	0.73	14	empty

Interfaces

1 interface between chains.

L–H · 1924 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5I19 · Crystal structure of human germline antibody IGHV3-23/IGKV1-39 · 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 5I19 · PDBe 5I19

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