Research workbench

AFFIMER:BCLXL

Analyse AFFIMER:BCLXL in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6HJL
Type: protein
Length: 910 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: BCL-2-like protein 1; Affimer ADB13
UniProt: Q07817
Pockets: 3 · best druggability 0.62

Structure

x-ray diffraction · 5 distinct chains · 60% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	BCL-2-like protein 1	protein	140	78% helix, 0% strand	Q07817
B	BCL-2-like protein 1	protein	138	75% helix, 0% strand	Q07817
C, D, H	Affimer ADB13	protein	90	21% helix, 58% strand	—
E, F	BCL-2-like protein 1	protein	137	77% helix, 0% strand	Q07817
G	Affimer ADB13	protein	88	19% helix, 59% strand	—

Pockets

3 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	354	0.62	0.79	43	empty
2	283	0.61	0.79	37	empty
3	119	0.42	0.76	15	empty

Interfaces

7 interfaces between chains.

E–F · 2201 Å² buried · 26 hydrogen bonds · protein-protein
A–B · 2187 Å² buried · 27 hydrogen bonds · protein-protein
A–C · 975 Å² buried · 12 hydrogen bonds · protein-protein
B–D · 912 Å² buried · 11 hydrogen bonds · protein-protein
F–G · 898 Å² buried · 11 hydrogen bonds · protein-protein

Compared structures

6HJL · Affimer:BclxL · the same entry in another collection · chain G against G, TM-score 1.00
Q07817 · AlphaFold monomer V2.0 prediction for BCL-2-like protein 1 (Q07817) · a predicted model of the same protein · chain E against A, TM-score 0.76

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 Q07817
Elsewhere: RCSB PDB 6HJL · PDBe 6HJL · UniProt Q07817

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