MolNFT v1 · #61654 · protein

X-ray crystal structure of human KCTD5 protein crystallized in high- salt buffer

3DRX · BTB/POZ domain-containing protein KCTD5: “X-ray crystal structure of human KCTD5 protein crystallized in high- salt buffer”. X-ray diffraction, 15 pockets (best druggability 0.72). MolNFT v1 #61654 on GenesisL1: 3D structure…

PDB: 3DRX
Type: protein
Length: 856 residues
Chains: 5
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: BTB/POZ domain-containing protein KCTD5
UniProt: Q9NXV2
Pockets: 15 · best druggability 0.72

Structure

x-ray diffraction · 5 distinct chains · 32% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	BTB/POZ domain-containing protein KCTD5	protein	161	32% helix, 23% strand	Q9NXV2
B	BTB/POZ domain-containing protein KCTD5	protein	172	33% helix, 24% strand	Q9NXV2
C	BTB/POZ domain-containing protein KCTD5	protein	177	31% helix, 23% strand	Q9NXV2
D	BTB/POZ domain-containing protein KCTD5	protein	177	30% helix, 21% strand	Q9NXV2
E	BTB/POZ domain-containing protein KCTD5	protein	169	34% helix, 21% strand	Q9NXV2

Pockets

15 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	1101	0.72	0.76	110	empty
2	858	0.71	0.77	72	empty
3	246	0.49	0.75	37	empty
4	114	0.44	0.78	21	empty
5	106	0.43	0.77	21	empty

Interfaces

5 interfaces between chains.

C–D · 1747 Å² buried · 23 hydrogen bonds · protein-protein
B–C · 1637 Å² buried · 21 hydrogen bonds · protein-protein
A–B · 1538 Å² buried · 24 hydrogen bonds · protein-protein
A–E · 1264 Å² buried · 22 hydrogen bonds · protein-protein
D–E · 1238 Å² buried · 18 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide (disulfide).

Compared structures

3DRX · X-ray crystal structure of human KCTD5 protein crystallized in high-salt buffer · the same entry in another collection · chain E against E, TM-score 1.00
Q9NXV2 · AlphaFold monomer V2.0 prediction for BTB/POZ domain-containing protein KCTD5 (Q9NXV2) · a predicted model of the same protein · chain E against A, TM-score 0.88

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 Q9NXV2
Elsewhere: RCSB PDB 3DRX · PDBe 3DRX · UniProt Q9NXV2

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