MolNFT v1 · #11242 · protein

Structural basis for disfavored elimination reaction in catalytic antibody 1D4

1JGV · Antibody light chain: “Structural basis for disfavored elimination reaction in catalytic antibody 1D4”. X-ray diffraction, 5 pockets (best druggability 0.66). MolNFT v1 #11242 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 1JGV
Type: protein
Length: 438 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Antibody light chain; Antibody heavy chain
Pockets: 5 · best druggability 0.66

Structure

x-ray diffraction · 2 distinct chains · 6% helix, 52% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
L	Antibody light chain	protein	220	7% helix, 50% strand	—
H	Antibody heavy chain	protein	218	6% helix, 54% strand	—

Pockets

5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	153	0.66	0.87	18	empty
2	403	0.57	0.74	47	empty
3	116	0.39	0.75	23	empty
4	59	0.29	0.74	15	empty
5	66	0.29	0.73	17	empty

Interfaces

1 interface between chains.

L–H · 1923 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

1JGV · Structural basis for disfavored elimination reaction in catalytic antibody 1D4 · 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 1JGV · PDBe 1JGV

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