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Computationally designed mini tetraloop-tetraloop receptor by the rnamake program - construct 6 (minittr 6)

Analyse Computationally designed mini tetraloop-tetraloop receptor by the rnamake… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6DVK
Type: RNA
Length: 94 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (95-mer)
Ligands: MG, CO
Pockets: 2 · best druggability 0.62

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	RNA (95-mer)	rna	94	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 5 copies · chains H
CO · Cobalt (II) ion · metal · 4 copies · chains H

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

Pockets

2 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	533	0.62	0.76	34	MG
2	87	0.29	0.73	13	empty

Compared structures

6DVK · Computationally designed mini tetraloop-tetraloop receptor by the RNAMake program… · the same entry in another collection · chain H against H, 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 6DVK · PDBe 6DVK

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