MolNFT v1 · #8171 · protein

Complex of bovine odorant binding protein with dihydromyrcenol

1GT3 · Odorant-binding protein: “Complex of bovine odorant binding protein with dihydromyrcenol”. X-ray diffraction, 2 ligands (DHM, 3OM), 6 pockets (best druggability 0.83). MolNFT v1 #8171 on GenesisL1: 3D structure, binding sites and…

PDB: 1GT3
Type: protein
Length: 314 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Odorant-binding protein
UniProt: P07435
Ligands: DHM, 3OM
Pockets: 6 · best druggability 0.83

Structure

x-ray diffraction · 2 distinct chains · 16% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Odorant-binding protein	protein	159	14% helix, 47% strand	P07435
B	Odorant-binding protein	protein	155	19% helix, 48% strand	P07435

Ligands and binding sites

DHM · 2,6-dimethyl-7-octen-2-ol · ligand · 2 copies · chains A, B
3OM · (3S)-1-octen-3-ol · ligand · 2 copies · chains A, B

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

Pockets

6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	145	0.83	0.99	19	3OM, DHM
2	144	0.83	0.99	23	DHM, 3OM
3	213	0.77	0.91	30	empty
4	58	0.28	0.74	12	empty
5	60	0.27	0.73	17	empty

Interfaces

1 interface between chains.

A–B · 2448 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

1GT3 · Complex of Bovine Odorant Binding Protein with dihydromyrcenol · the same entry in another collection · chain A against A, TM-score 1.00
P07435 · AlphaFold monomer V2.0 prediction for odorant-binding protein (P07435) · a predicted model of the same protein · chain A against A, TM-score 0.95

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 P07435
Elsewhere: RCSB PDB 1GT3 · PDBe 1GT3 · UniProt P07435

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