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Crystal structure of tRNA (UM34/CM34) methyltransferase trml from escherichia COLI

Analyse Crystal structure of tRNA (UM34/CM34) methyltransferase trml from escherichia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4JAK
Type: protein
Length: 310 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TRNA (CYTIDINE(34)-2'-O)-methyltransferase
EC: 2.1.1.207
UniProt: P0AGJ7
Pockets: 3 · best druggability 0.73

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	TRNA (CYTIDINE(34)-2'-O)-methyltransferase (EC 2.1.1.207)	protein	155	34% helix, 18% strand	P0AGJ7

Pockets

3 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	709	0.73	0.79	80	empty
2	53	0.26	0.74	15	empty
3	56	0.25	0.73	17	empty

Interfaces

1 interface between chains.

A–B · 1396 Å² buried · 35 hydrogen bonds · protein-protein

Compared structures

4JAK · Crystal structure of tRNA (Um34/Cm34) methyltransferase TrmL from Escherichia coli · the same entry in another collection · chain A against A, TM-score 1.00
P0AGJ7 · AlphaFold monomer V2.0 prediction for tRNA (CYTIDINE(34)-2'-O)-methyltransferase (P0AGJ7) · a predicted model of the same protein · chain A against A, TM-score 0.96

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 P0AGJ7
Elsewhere: RCSB PDB 4JAK · PDBe 4JAK · UniProt P0AGJ7

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