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Oxidized form of formate dehydrogenase H from E. COLI

Analyse Oxidized form of formate dehydrogenase H from E. COLI in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1FDO
Type: protein
Length: 715 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Formate dehydrogenase H
EC: 1.2.1.2
UniProt: P07658
Ligands: MGD, SF4, 6MO
Pockets: 5 · best druggability 0.88

Structure

x-ray diffraction · 1 distinct chain · 37% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Formate dehydrogenase H (EC 1.2.1.2)	protein	715	37% helix, 17% strand	P07658

Ligands and binding sites

MGD · 2-amino-5,6-dimercapto-7-methyl-3,7,8A,9-tetrahydro-8-oxa-1,3,9,10-tetraaza-anthracen-4-one guanosine dinucleotide · ligand · 2 copies · chains A
SF4 · Iron/sulfur cluster · ligand · chains A
6MO · Molybdenum(vi) ion · metal · chains A

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

Pockets

5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	499	0.88	0.95	87	MGD, 6MO
2	254	0.60	0.79	40	empty
3	161	0.48	0.77	30	empty
4	202	0.46	0.74	29	empty
5	55	0.25	0.72	16	empty

Compared structures

1FDO · Oxidized form of formate dehydrogenase H from E. COLI · 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 P07658
Elsewhere: RCSB PDB 1FDO · PDBe 1FDO · UniProt P07658

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