Research workbench

42F3 PCPB7/H-2LD complex

Analyse 42F3 PCPB7/H-2LD complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4MVB
Type: protein
Length: 621 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 42F3 alpha vmch; 42F3 beta vmch; H-2 class I histocompatibility antigen, L-D alpha chain…
UniProt: P01897
Pockets: 10 · best druggability 0.75

Structure

x-ray diffraction · 4 distinct chains · 14% helix, 43% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	42F3 alpha vmch	protein	199	3% helix, 43% strand	—
D	42F3 beta vmch	protein	239	6% helix, 51% strand	—
A	H-2 class I histocompatibility antigen, L-D alpha chain	protein	174	37% helix, 32% strand	P01897
B	PCPB7	protein	9	0% helix, 0% strand	—

Pockets

10 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	923	0.75	0.78	82	empty
2	132	0.50	0.80	34	empty
3	68	0.45	0.82	18	empty
4	123	0.42	0.76	22	empty
5	137	0.40	0.74	32	empty

Interfaces

6 interfaces between chains.

C–D · 2252 Å² buried · 20 hydrogen bonds · protein-protein
A–B · 867 Å² buried · 13 hydrogen bonds · protein-protein
C–A · 397 Å² buried · 4 hydrogen bonds · protein-protein
D–A · 351 Å² buried · 4 hydrogen bonds · protein-protein
D–B · 207 Å² buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide (disulfide).

Compared structures

4MVB · 42F3 pCPB7/H-2Ld Complex · the same entry in another collection · chain C against C, TM-score 1.00
P01897 · AlphaFold monomer V2.0 prediction for H-2 class I histocompatibility antigen, L-D alpha… · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P01897
Elsewhere: RCSB PDB 4MVB · PDBe 4MVB · UniProt P01897

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.