MolNFT v1 · #28937 · protein

Crystal structure of a nicotinate phosphoribosyltransferase from thermoplasma acidophilum, native structure

1YTD: “Crystal structure of a nicotinate phosphoribosyltransferase from thermoplasma acidophilum, native structure”. X-ray diffraction, 3 pockets (best druggability 0.51). MolNFT v1 #28937 on GenesisL1: 3D structure, binding sites and…

PDB: 1YTD
Type: protein
Length: 389 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nicotinate phosphoribosyltransferase from thermoplasma acidophilum
EC: 2.4.2.11
UniProt: Q9HJ28
Pockets: 3 · best druggability 0.51

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nicotinate phosphoribosyltransferase from thermoplasma acidophilum (EC 2.4.2.11)	protein	389	41% helix, 21% strand	Q9HJ28

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	247	0.51	0.75	30	empty
2	114	0.43	0.77	21	empty
3	82	0.33	0.75	17	empty

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

1YTD · Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma… · the same entry in another collection · chain A against A, TM-score 1.00
Q9HJ28 · AlphaFold monomer V2.0 prediction for putative nicotinate phosphoribosyltransferase… · 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 Q9HJ28
Elsewhere: RCSB PDB 1YTD · PDBe 1YTD · UniProt Q9HJ28

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