MolNFT v1 · #169419 · protein

Crystal structure of streptomyces sviceus ssdesb

6XBC · Monooxigenase: “Crystal structure of streptomyces sviceus ssdesb”. X-ray diffraction, 1 ligand (FAD), 20 pockets (best druggability 0.87). MolNFT v1 #169419 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6XBC
Type: protein
Length: 3,325 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Monooxigenase
UniProt: B5HNG5
Ligands: FAD
Pockets: 20 · best druggability 0.87

Structure

x-ray diffraction · 4 distinct chains · 34% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, E, H	Monooxigenase	protein	416	34% helix, 22% strand	B5HNG5
C, D	Monooxigenase	protein	414	32% helix, 22% strand	B5HNG5
F	Monooxigenase	protein	415	35% helix, 22% strand	B5HNG5
G	Monooxigenase	protein	418	35% helix, 22% strand	B5HNG5

Ligands and binding sites

FAD · Flavin-adenine dinucleotide · ligand · 8 copies · chains A, B, C, D, E, F, G, H

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

Pockets

20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	888	0.87	0.89	111	FAD
2	1005	0.87	0.88	110	FAD
3	1038	0.87	0.87	117	FAD
4	1124	0.86	0.87	127	FAD
5	868	0.85	0.87	89	FAD

Interfaces

14 interfaces between chains.

F–G · 2129 Å² buried · 26 hydrogen bonds · protein-protein
E–H · 2115 Å² buried · 27 hydrogen bonds · protein-protein
A–D · 2092 Å² buried · 22 hydrogen bonds · protein-protein
B–C · 2091 Å² buried · 16 hydrogen bonds · protein-protein
F–H · 1877 Å² buried · 16 hydrogen bonds · protein-protein

Compared structures

6XBC · Crystal structure of Streptomyces sviceus SsDesB · 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 B5HNG5
Elsewhere: RCSB PDB 6XBC · PDBe 6XBC · UniProt B5HNG5

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.