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Human ompd-domain of umps in complex with 6-hydroxy-ump at 0.95 ångströms resolution, crystal 2

Analyse Human ompd-domain of umps in complex with 6-hydroxy-ump at 0.95 ångströms… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7OTU
Type: protein
Length: 257 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Isoform 2 of uridine 5'-monophosphate synthase
EC: 2.4.2.10, 4.1.1.23
UniProt: P11172
Ligands: BMP
Pockets: 1 · best druggability 0.56

Structure

x-ray diffraction · 1 distinct chain · 45% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Isoform 2 of uridine 5'-monophosphate synthase (EC 2.4.2.10, 4.1.1.23)	protein	257	45% helix, 17% strand	P11172

Ligands and binding sites

BMP · 6-hydroxyuridine-5'-phosphate · ligand · chains A
GOL · Glycerol · additive · 2 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	208	0.56	0.79	37	BMP

Modifications

Observed in the structure: 1 modified (oxidation).

Compared structures

7OTU · Human OMPD-domain of UMPS in complex with 6-hydroxy-UMP at 0.95 Angstroms resolution… · 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 P11172
Elsewhere: RCSB PDB 7OTU · PDBe 7OTU · UniProt P11172

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