MolNFT v1 · #163785 · protein

BD2924 apo-form

6SD8 · Probable acyl-CoA dehydrogenase: “BD2924 apo-form”. X-ray diffraction, 1 ligand (FAD), 11 pockets (best druggability 0.84). MolNFT v1 #163785 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6SD8
Type: protein
Length: 1,006 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Probable acyl-CoA dehydrogenase
EC: 1.3.99.-
UniProt: Q6MJ59
Ligands: FAD
Pockets: 11 · best druggability 0.84

Structure

x-ray diffraction · 1 distinct chain · 57% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X, A	Probable acyl-CoA dehydrogenase (EC 1.3.99.-)	protein	503	57% helix, 14% strand	Q6MJ59

Ligands and binding sites

FAD · Flavin-adenine dinucleotide · ligand · 2 copies · chains X, A

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

Pockets

11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1105	0.84	0.85	115	FAD
2	1158	0.82	0.83	101	FAD
3	409	0.61	0.76	39	empty
4	172	0.57	0.81	33	empty
5	112	0.54	0.83	20	empty

Interfaces

1 interface between chains.

X–A · 2639 Å² buried · 43 hydrogen bonds · protein-protein

Compared structures

6SD8 · Bd2924 apo-form · the same entry in another collection · chain X against X, 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 Q6MJ59
Elsewhere: RCSB PDB 6SD8 · PDBe 6SD8 · UniProt Q6MJ59

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