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Crystal structure of ggcgt in complex with udp and nothofagin

Analyse Crystal structure of ggcgt in complex with udp and nothofagin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6L7H
Type: protein
Length: 453 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: GGCGT1
Ligands: UDP, E7F
Pockets: 5 · best druggability 0.85

Structure

x-ray diffraction · 1 distinct chain · 49% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	GGCGT1	protein	453	49% helix, 15% strand	—

Ligands and binding sites

UDP · Uridine-5'-diphosphate · ligand · 2 copies · chains A
E7F · 1-[3-[(2S,3R,4R,5S,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]-2,4,6-tris(oxidanyl)phenyl]-3-(4-hydroxyphenyl)propan-1-one · ligand · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	686	0.85	0.89	72	UDP, E7F
2	113	0.39	0.75	21	empty
3	62	0.33	0.76	14	empty
4	62	0.32	0.75	18	empty
5	62	0.29	0.74	20	empty

Compared structures

6L7H · crystal structure of GgCGT in complex with UDP and Nothofagin · 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
Elsewhere: RCSB PDB 6L7H · PDBe 6L7H

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