MolNFT v1 · #10984 · protein

Crystal structure and substrate binding modeling of the uroporphyrinogen-III decarboxylase from nicotiana tabacum: implications for the catalytic mechanism

1J93 · Uroporphyrinogen decarboxylase: “Crystal structure and substrate binding modeling of the uroporphyrinogen-III decarboxylase from nicotiana…”. X-ray diffraction, 1 ligand (SO4), 1 pocket (best druggability 0.71). MolNFT v1 #10984 on…

PDB: 1J93
Type: protein
Length: 343 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Uroporphyrinogen decarboxylase
EC: 4.1.1.37
UniProt: Q42967
Ligands: SO4
Pockets: 1 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 50% helix, 12% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Uroporphyrinogen decarboxylase (EC 4.1.1.37)	protein	343	50% helix, 12% strand	Q42967

Ligands and binding sites

SO4 · Sulfate ion · ion · 5 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	478	0.71	0.80	32	SO4

Compared structures

1J93 · Crystal Structure and Substrate Binding Modeling of the Uroporphyrinogen-III… · the same entry in another collection · chain A against A, TM-score 1.00
Q42967 · AlphaFold monomer V2.0 prediction for uroporphyrinogen decarboxylase, chloroplastic… · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q42967
Elsewhere: RCSB PDB 1J93 · PDBe 1J93 · UniProt Q42967

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