Research workbench

Co-crystal structure of HIV-1 tar RNA in complex with lab-evolved rrm TBP6.9

Analyse Co-crystal structure of HIV-1 tar RNA in complex with lab-evolved rrm TBP6.9 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6XH0
Type: protein + RNA
Length: 114 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tar binding protein 6.9; Trans-activation response element
Ligands: MG
Pockets: 2 · best druggability 0.70

Structure

x-ray diffraction · 2 distinct chains · 30% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Tar binding protein 6.9	protein	87	30% helix, 26% strand	—
D	Trans-activation response element	rna	27	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains D

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

Pockets

2 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	161	0.70	0.89	22	empty
2	294	0.52	0.75	26	empty

Interfaces

1 interface between chains.

A–D · 794 Å² buried · 17 hydrogen bonds · protein-nucleic

Compared structures

6XH0 · Co-crystal structure of HIV-1 TAR RNA in complex with lab-evolved RRM TBP6.9 · 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 6XH0 · PDBe 6XH0

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