MolNFT v1 · #116714 · protein

Crystal structure of the plantazolicin methyltransferase bpuml in complex with monoazolic desmethylpzn analog and sah

5DM1 · Methyltransferase domain family: “Crystal structure of the plantazolicin methyltransferase bpuml in complex with monoazolic desmethylpzn analog…”. X-ray diffraction, 2 ligands (5D7, SAH), 1 pocket (best druggability 0.78). MolNFT v1…

PDB: 5DM1
Type: protein
Length: 257 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Methyltransferase domain family
UniProt: B4ADV2
Ligands: 5D7, SAH
Pockets: 1 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 53% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Methyltransferase domain family	protein	257	53% helix, 20% strand	B4ADV2

Ligands and binding sites

5D7 · prop-2-en-1-yl 2-[(1S)-1-amino-4-carbamimidamidobutyl]-1,3-thiazole-4-carboxylate · ligand · chains A
SAH · S-adenosyl-L-homocysteine · ligand · chains A
GOL · Glycerol · additive · 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	490	0.78	0.86	71	5D7, SAH, GOL

Compared structures

5DM1 · Crystal structure of the plantazolicin methyltransferase BpumL in complex with monoazolic… · 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 B4ADV2
Elsewhere: RCSB PDB 5DM1 · PDBe 5DM1 · UniProt B4ADV2

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