MolNFT v1 · #48118 · protein

Crystal structure of 16S rRNA methyltransferase rsmc

2PJD · Ribosomal RNA small subunit methyltransferase C: “Crystal structure of 16S rRNA methyltransferase rsmc”. X-ray diffraction, 3 pockets (best druggability 0.64). MolNFT v1 #48118 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 2PJD
Type: protein
Length: 334 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ribosomal RNA small subunit methyltransferase C
EC: 2.1.1.52
UniProt: P39406
Pockets: 3 · best druggability 0.64

Structure

x-ray diffraction · 1 distinct chain · 35% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ribosomal RNA small subunit methyltransferase C (EC 2.1.1.52)	protein	334	35% helix, 27% strand	P39406

Pockets

3 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	420	0.64	0.78	43	empty
2	69	0.51	0.85	25	empty
3	59	0.33	0.77	14	empty

Modifications

Observed in the structure: 5 modified (engineered).

Compared structures

2PJD · Crystal structure of 16S rRNA methyltransferase RsmC · the same entry in another collection · chain A against A, TM-score 1.00
P39406 · AlphaFold monomer V2.0 prediction for ribosomal RNA small subunit methyltransferase C… · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P39406
Elsewhere: RCSB PDB 2PJD · PDBe 2PJD · UniProt P39406

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