MolNFT v1 · #177131 · protein

Cryoem structure of human KV4.2-DPP6S-KCHIP1 complex

7E8H · Dipeptidyl aminopeptidase-like protein 6: “Cryoem structure of human KV4.2-DPP6S-KCHIP1 complex”. Electron microscopy, 20 pockets (best druggability 0.87). MolNFT v1 #177131 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 7E8H
Type: protein
Length: 5,576 residues
Chains: 12
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Dipeptidyl aminopeptidase-like protein 6; Kv channel-interacting protein 1; Potassium…
UniProt: P42658, Q9NZI2, Q9NZV8
Pockets: 20 · best druggability 0.87

Structure

electron microscopy · 6 distinct chains · 38% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
J, L	Dipeptidyl aminopeptidase-like protein 6	protein	756	18% helix, 29% strand	P42658
I, K	Dipeptidyl aminopeptidase-like protein 6	protein	760	18% helix, 29% strand	P42658
F, H	Kv channel-interacting protein 1	protein	176	60% helix, 1% strand	Q9NZI2
B, D	Potassium voltage-gated channel subfamily D member 2	protein	459	66% helix, 4% strand	Q9NZV8
E, G	Kv channel-interacting protein 1	protein	177	59% helix, 4% strand	Q9NZI2
A, C	Potassium voltage-gated channel subfamily D member 2	protein	460	61% helix, 4% strand	Q9NZV8

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1103	0.87	0.89	137	empty
2	646	0.82	0.86	53	empty
3	631	0.78	0.83	69	empty
4	967	0.77	0.79	105	empty
5	993	0.77	0.79	109	empty

Interfaces

20 interfaces between chains.

A–D · 3235 Å² buried · 26 hydrogen bonds · protein-protein
B–C · 3232 Å² buried · 26 hydrogen bonds · protein-protein
D–C · 3144 Å² buried · 30 hydrogen bonds · protein-protein
B–A · 3143 Å² buried · 30 hydrogen bonds · protein-protein
B–G · 1941 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 16 disulfide (disulfide).

Compared structures

7E8H · CryoEM structure of human Kv4.2-DPP6S-KChIP1 complex · the same entry in another collection · chain C against C, TM-score 1.00

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 P42658
Every structure of UniProt Q9NZI2
Every structure of UniProt Q9NZV8
Elsewhere: RCSB PDB 7E8H · PDBe 7E8H · UniProt P42658 · UniProt Q9NZI2 · UniProt Q9NZV8

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