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Structure of the rieske non-heme iron oxygenase gxta

Analyse Structure of the rieske non-heme iron oxygenase gxta in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6WNC
Type: protein
Length: 957 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sxtdiox
UniProt: C3RVP5
Ligands: FES, FE
Pockets: 13 · best druggability 0.80

Structure

x-ray diffraction · 3 distinct chains · 21% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Sxtdiox	protein	311	21% helix, 34% strand	C3RVP5
B	Sxtdiox	protein	321	21% helix, 34% strand	C3RVP5
C	Sxtdiox	protein	325	20% helix, 33% strand	C3RVP5

Ligands and binding sites

FES · Fe2/s2 (inorganic) cluster · ligand · 3 copies · chains A, B, C
FE · Fe (III) ion · metal · 3 copies · chains A, B, C
GOL · Glycerol · additive · 2 copies · chains A, C

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

Pockets

13 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	516	0.80	0.86	53	GOL
2	361	0.79	0.88	42	empty
3	375	0.78	0.87	41	GOL
4	426	0.67	0.79	47	empty
5	324	0.57	0.76	41	empty

Interfaces

3 interfaces between chains.

B–C · 906 Å² buried · 7 hydrogen bonds · protein-protein
A–C · 280 Å² buried · 5 hydrogen bonds · protein-protein
A–B · 262 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

6WNC · Structure of the Rieske non-heme iron oxygenase GxtA · 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 C3RVP5
Elsewhere: RCSB PDB 6WNC · PDBe 6WNC · UniProt C3RVP5

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