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The structure of HLA-A*3001/RT313

Analyse The structure of HLA-A*3001/RT313 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6J1W
Type: protein
Length: 382 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: HLA-A*3001; Ala-ile-phe-gln-ser-ser-met-thr-lys; Beta-2-microglobulin
UniProt: P61769
Pockets: 5 · best druggability 0.71

Structure

x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	HLA-A*3001	protein	274	27% helix, 40% strand	—
C	Ala-ile-phe-gln-ser-ser-met-thr-lys	protein	9	0% helix, 0% strand	—
B	Beta-2-microglobulin	protein	99	0% helix, 49% strand	P61769

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	50	0.71	0.99	16	empty
2	581	0.67	0.77	57	empty
3	162	0.46	0.76	25	empty
4	98	0.40	0.77	25	empty
5	61	0.33	0.77	16	empty

Interfaces

2 interfaces between chains.

A–B · 1233 Å² buried · 20 hydrogen bonds · protein-protein
A–C · 917 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

6J1W · The structure of HLA-A*3001/RT313 · the same entry in another collection · chain A against A, TM-score 1.00
P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain B against A, TM-score 0.99

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P61769
Elsewhere: RCSB PDB 6J1W · PDBe 6J1W · UniProt P61769

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