MolNFT v1 · #123050 · protein

Crystal structure of L-arabinonate dehydratase in apo-form

5J83 · Dihydroxyacid DEHYDRATASE/PHOSPHOGLUCONATE dehydratase: “Crystal structure of L-arabinonate dehydratase in apo-form”. X-ray diffraction, 8 pockets (best druggability 0.60). MolNFT v1 #123050 on GenesisL1: 3D structure, binding sites…

PDB: 5J83
Type: protein
Length: 1,150 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Dihydroxyacid DEHYDRATASE/PHOSPHOGLUCONATE dehydratase
UniProt: I9XDU6
Pockets: 8 · best druggability 0.60

Structure

x-ray diffraction · 1 distinct chain · 36% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Dihydroxyacid DEHYDRATASE/PHOSPHOGLUCONATE dehydratase	protein	575	36% helix, 13% strand	I9XDU6

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	293	0.60	0.79	43	empty
2	376	0.60	0.77	45	empty
3	242	0.59	0.80	34	empty
4	122	0.41	0.76	18	empty
5	82	0.33	0.74	20	empty

Interfaces

1 interface between chains.

A–B · 4278 Å² buried · 48 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide, 2 modified (disulfide, carboxylation).

Compared structures

5J83 · Crystal structure of L-arabinonate dehydratase in apo-form · 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 I9XDU6
Elsewhere: RCSB PDB 5J83 · PDBe 5J83 · UniProt I9XDU6

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