MolNFT v1 · #163654 · protein

Drosophila otk, extracellular domains 3-5

6S9F · Tyrosine-protein kinase-like otk: “Drosophila otk, extracellular domains 3-5”. X-ray diffraction, 2 ligands (NAG, SO4), 2 pockets (best druggability 0.28). MolNFT v1 #163654 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 6S9F
Type: protein
Length: 598 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tyrosine-protein kinase-like otk
UniProt: Q6AWJ9
Ligands: NAG, SO4
Pockets: 2 · best druggability 0.28

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Tyrosine-protein kinase-like otk	protein	298	4% helix, 50% strand	Q6AWJ9
B	Tyrosine-protein kinase-like otk	protein	300	5% helix, 49% strand	Q6AWJ9

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 12 copies · chains A, B
SO4 · Sulfate ion · ion · 7 copies · chains A, B

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	62	0.28	0.74	10	empty
2	54	0.26	0.73	15	SO4

Interfaces

1 interface between chains.

A–B · 432 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 glycan, 6 disulfide (N-glycosylation, disulfide).

Compared structures

6S9F · Drosophila OTK, extracellular domains 3-5 · the same entry in another collection · chain A against A, TM-score 1.00
Q6AWJ9 · AlphaFold monomer V2.0 prediction for tyrosine-protein kinase-like otk (Q6AWJ9) · a predicted model of the same protein · chain A against A, TM-score 0.79

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 Q6AWJ9
Elsewhere: RCSB PDB 6S9F · PDBe 6S9F · UniProt Q6AWJ9

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