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Trk-a in complex with ligand 1

Analyse Trk-a in complex with ligand 1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PL4
Type: protein
Length: 299 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: High affinity nerve growth factor receptor
EC: 2.7.10.1
UniProt: P04629
Ligands: OO7
Pockets: 4 · best druggability 0.72

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	High affinity nerve growth factor receptor (EC 2.7.10.1)	protein	299	41% helix, 17% strand	P04629

Ligands and binding sites

OO7 · N-{[5-(methoxymethyl)-2-(trifluoromethoxy) phenyl]methyl}-N'-(8-methyl-2-phenylimidazo[1,2-a]pyrazin-3-yl)urea · ligand · chains A

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

Pockets

4 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	489	0.72	0.81	52	OO7
2	160	0.58	0.82	25	empty
3	69	0.31	0.74	19	empty
4	50	0.25	0.73	13	empty

Modifications

Observed in the structure: 1 modified (phosphorylation).

Compared structures

6PL4 · Trk-a in complex with ligand 1 · the same entry in another collection · chain A against A, 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 P04629
Elsewhere: RCSB PDB 6PL4 · PDBe 6PL4 · UniProt P04629

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