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Structure of an antibiotic related methyltransferase

Analyse Structure of an antibiotic related methyltransferase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3P2I
Type: protein
Length: 398 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 16S rRNA methylase
UniProt: A8C927
Pockets: 7 · best druggability 0.77

Structure

x-ray diffraction · 1 distinct chain · 37% helix, 30% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	16S rRNA methylase	protein	199	37% helix, 30% strand	A8C927

Pockets

7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	630	0.77	0.82	74	empty
2	98	0.73	0.95	19	empty
3	269	0.54	0.76	34	empty
4	65	0.36	0.78	17	empty
5	69	0.36	0.77	15	empty

Interfaces

1 interface between chains.

A–B · 977 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

3P2I · Structure of an antibiotic related Methyltransferase · the same entry in another collection · chain A against A, TM-score 1.00
A8C927 · AlphaFold monomer V2.0 prediction for 16S rRNA (ADENINE(1408)-N(1))-methyltransferase… · 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 A8C927
Elsewhere: RCSB PDB 3P2I · PDBe 3P2I · UniProt A8C927

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