MolNFT v1 · #117109 · protein

Structure of P97 N-D1 L198W mutant in complex with ADP

5DYG · Transitional endoplasmic reticulum ATPase: “Structure of P97 N-D1 L198W mutant in complex with ADP”. X-ray diffraction, 1 ligand (ADP), 6 pockets (best druggability 0.68). MolNFT v1 #117109 on GenesisL1: 3D structure, binding sites…

PDB: 5DYG
Type: protein
Length: 446 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transitional endoplasmic reticulum ATPase
EC: 3.6.4.6
UniProt: P55072
Ligands: ADP
Pockets: 6 · best druggability 0.68

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Transitional endoplasmic reticulum ATPase (EC 3.6.4.6)	protein	446	38% helix, 23% strand	P55072

Ligands and binding sites

ADP · Adenosine-5'-diphosphate · ligand · chains A

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

Pockets

6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	458	0.68	0.79	53	empty
2	79	0.53	0.85	22	ADP
3	121	0.42	0.77	25	empty
4	81	0.39	0.78	16	empty
5	96	0.34	0.74	16	empty

Compared structures

5DYG · Structure of p97 N-D1 L198W mutant in complex with ADP · 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 P55072
Elsewhere: RCSB PDB 5DYG · PDBe 5DYG · UniProt P55072

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