Research workbench

MHC A02 allele presenting mtsaigilvp

Analyse MHC A02 allele presenting mtsaigilvp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6G3J
Type: protein
Length: 772 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: HLA class I histocompatibility antigen, a-2 alpha chain; Beta-2-microglobulin…
UniProt: P01892, P61769
Pockets: 10 · best druggability 0.70

Structure

x-ray diffraction · 3 distinct chains · 18% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	HLA class I histocompatibility antigen, a-2 alpha chain	protein	276	25% helix, 39% strand	P01892
B, E	Beta-2-microglobulin	protein	100	0% helix, 49% strand	P61769
C, F	Met-thr-ser-ala-ile-gly-ile-leu-pro-val	protein	10	0% helix, 0% strand	—

Pockets

10 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	639	0.70	0.78	72	empty
2	628	0.68	0.77	57	empty
3	641	0.67	0.76	60	empty
4	119	0.48	0.79	21	empty
5	108	0.42	0.77	20	empty

Interfaces

7 interfaces between chains.

A–B · 1403 Å² buried · 24 hydrogen bonds · protein-protein
D–E · 1351 Å² buried · 24 hydrogen bonds · protein-protein
D–F · 866 Å² buried · 15 hydrogen bonds · protein-protein
A–C · 862 Å² buried · 14 hydrogen bonds · protein-protein
A–D · 169 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

6G3J · MHC A02 Allele presenting MTSAIGILVP · the same entry in another collection · chain F against F, TM-score 1.00
P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain E 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 P01892
Every structure of UniProt P61769
Elsewhere: RCSB PDB 6G3J · PDBe 6G3J · UniProt P01892 · UniProt P61769

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