MolNFT v1 · #186892 · protein

Cryo-EM structure of a TTYH3 cis-dimer

7RTW · Protein tweety homolog 3: “Cryo-EM structure of a TTYH3 cis-dimer”. Electron microscopy, 3 ligands (NAG, BMA, CA), 16 pockets (best druggability 0.80). MolNFT v1 #186892 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7RTW
Type: protein
Length: 701 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein tweety homolog 3
UniProt: Q6P5F7
Ligands: NAG, BMA, CA
Pockets: 16 · best druggability 0.80

Structure

electron microscopy · 2 distinct chains · 78% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein tweety homolog 3	protein	388	77% helix, 1% strand	Q6P5F7
B	Protein tweety homolog 3	protein	313	80% helix, 0% strand	Q6P5F7

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 11 copies · chains A, B
BMA · beta-D-mannopyranose · sugar · 4 copies · chains B
CA · Calcium ion · metal · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	779	0.80	0.83	56	empty
2	948	0.80	0.81	65	empty
3	123	0.74	0.94	22	empty
4	73	0.72	0.97	16	empty
5	75	0.70	0.94	24	empty

Interfaces

1 interface between chains.

A–B · 2039 Å² buried · 10 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 glycan, 4 disulfide (N-glycosylation, disulfide).

Compared structures

7RTW · Cryo-EM structure of a TTYH3 cis-dimer · the same entry in another collection · chain A against A, TM-score 1.00
Q6P5F7 · AlphaFold monomer V2.0 prediction for protein tweety homolog 3 (Q6P5F7) · a predicted model of the same protein · chain A 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 Q6P5F7
Elsewhere: RCSB PDB 7RTW · PDBe 7RTW · UniProt Q6P5F7

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