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Karyopherin alpha (yeast) + SV40 T antigen nls

Analyse Karyopherin alpha (yeast) + SV40 T antigen nls in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1BK6
Type: protein
Length: 866 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Karyopherin alpha; Large T antigen
UniProt: Q02821
Pockets: 3 · best druggability 0.78

Structure

x-ray diffraction · 3 distinct chains · 72% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Karyopherin alpha	protein	422	74% helix, 0% strand	Q02821
C, E	Large T antigen	protein	6	0% helix, 0% strand	—
D, F	Large T antigen	protein	5	0% helix, 0% strand	—

Pockets

3 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	1057	0.78	0.80	101	empty
2	451	0.68	0.79	57	empty
3	163	0.60	0.84	22	empty

Interfaces

9 interfaces between chains.

A–B · 1106 Å² buried · 17 hydrogen bonds · protein-protein
A–C · 648 Å² buried · 15 hydrogen bonds · protein-protein
B–E · 633 Å² buried · 15 hydrogen bonds · protein-protein
A–D · 400 Å² buried · 9 hydrogen bonds · protein-protein
B–F · 381 Å² buried · 9 hydrogen bonds · protein-protein

Compared structures

1BK6 · Karyopherin alpha (yeast) + SV40 T antigen nls · the same entry in another collection · chain D against D, TM-score 1.00
Q02821 · AlphaFold monomer V2.0 prediction for importin subunit alpha (Q02821) · a predicted model of the same protein · chain A 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 Q02821
Elsewhere: RCSB PDB 1BK6 · PDBe 1BK6 · UniProt Q02821

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