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Crystal structure of fructuronate reductase (ydfi) from E. COLI CFT073 (efi target efi-506389) complexed with NADH and D-mannonate

Analyse Crystal structure of fructuronate reductase (ydfi) from E. COLI CFT073 (efi… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4IM7
Type: protein
Length: 483 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hypothetical oxidoreductase ydfi
EC: 1.-.-.-
UniProt: Q8FHD0
Ligands: CS2, NAI, SO4
Pockets: 3 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 52% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Hypothetical oxidoreductase ydfi (EC 1.-.-.-)	protein	483	52% helix, 13% strand	Q8FHD0

Ligands and binding sites

CS2 · D-mannonic acid · ligand · chains A
NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · chains A
SO4 · Sulfate ion · ion · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	557	0.76	0.83	55	CS2, NAI
2	128	0.46	0.78	27	empty
3	52	0.36	0.80	14	empty

Compared structures

4IM7 · Crystal structure of fructuronate reductase (ydfI) from E. coli CFT073 (EFI TARGET… · the same entry in another collection · chain A against A, TM-score 1.00

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q8FHD0
Elsewhere: RCSB PDB 4IM7 · PDBe 4IM7 · UniProt Q8FHD0

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