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Crystal structure of pentameric KCTD9 btb domain

Analyse Crystal structure of pentameric KCTD9 btb domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5BXH
Type: protein
Length: 496 residues
Chains: 5
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: BTB/POZ domain-containing protein KCTD9
UniProt: Q7L273
Pockets: 7 · best druggability 0.70

Structure

x-ray diffraction · 5 distinct chains · 42% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	BTB/POZ domain-containing protein KCTD9	protein	101	41% helix, 16% strand	Q7L273
B	BTB/POZ domain-containing protein KCTD9	protein	99	42% helix, 16% strand	Q7L273
C	BTB/POZ domain-containing protein KCTD9	protein	99	42% helix, 16% strand	Q7L273
D	BTB/POZ domain-containing protein KCTD9	protein	100	39% helix, 15% strand	Q7L273
E	BTB/POZ domain-containing protein KCTD9	protein	97	43% helix, 16% strand	Q7L273

Pockets

7 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	454	0.70	0.81	61	empty
2	385	0.68	0.81	72	empty
3	53	0.53	0.88	12	empty
4	102	0.38	0.75	18	empty
5	99	0.37	0.74	18	empty

Interfaces

5 interfaces between chains.

B–D · 801 Å² buried · 16 hydrogen bonds · protein-protein
C–E · 784 Å² buried · 15 hydrogen bonds · protein-protein
A–B · 783 Å² buried · 16 hydrogen bonds · protein-protein
D–E · 769 Å² buried · 18 hydrogen bonds · protein-protein
A–C · 733 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

5BXH · Crystal structure of pentameric KCTD9 BTB domain · the same entry in another collection · chain E against E, TM-score 1.00
Q7L273 · AlphaFold monomer V2.0 prediction for BTB/POZ domain-containing protein KCTD9 (Q7L273) · a predicted model of the same protein · chain E against A, TM-score 0.97

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 Q7L273
Elsewhere: RCSB PDB 5BXH · PDBe 5BXH · UniProt Q7L273

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