MolNFT v1 · #23146 · RNA

Restrained refinement of the monoclinic form of yeast phenylalanine transfer RNA. temperature factors and dynamics, coordinated waters, and base-pair propeller twist angles

1TRA · Trnaphe: “Restrained refinement of the monoclinic form of yeast phenylalanine transfer RNA. temperature factors and…”. X-ray diffraction, 1 ligand (MG), 3 pockets (best druggability 0.61). MolNFT v1 #23146 on GenesisL1: 3D…

PDB: 1TRA
Type: RNA
Length: 76 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Trnaphe
Ligands: MG
Pockets: 3 · best druggability 0.61

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Trnaphe	rna	76	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 5 copies · chains A

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

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	545	0.61	0.75	31	empty
2	392	0.57	0.76	22	MG
3	50	0.30	0.77	10	empty

Modifications

Observed in the structure: 14 modified (nucleotide modification).

Compared structures

1TRA · Restrained refinement of the monoclinic form of yeast phenylalanine transfer RNA.… · 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
Elsewhere: RCSB PDB 1TRA · PDBe 1TRA

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.