MolNFT v1 · #1591 · protein

Bence jones protein del: an entire immunoglobulin kappa light-chain dimer

1B6D: “Bence jones protein del: an entire immunoglobulin kappa light-chain dimer”. X-ray diffraction, 5 pockets (best druggability 0.75). MolNFT v1 #1591 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1B6D
Type: protein
Length: 424 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Immunoglobulin
Pockets: 5 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 6% helix, 53% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Immunoglobulin	protein	212	6% helix, 53% 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	967	0.75	0.78	88	empty
2	124	0.41	0.75	24	empty
3	65	0.32	0.75	14	empty
4	70	0.32	0.75	16	empty
5	56	0.28	0.74	14	empty

Interfaces

1 interface between chains.

A–B · 1115 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

1B6D · Bence jones protein del: an entire immunoglobulin kappa light-chain dimer · 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 1B6D · PDBe 1B6D

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