HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Compounds
RNA-SM complexes
About

You are here

Complexes

× Close

System Properties

Experimental technique Experimental resolution Molecular weight Deposition date Molecule type Organism With MD simulation With equivalence class

Ligand Properties

Molecular weight Number of atoms Number of PDB entries Lipinski rule of 5 Veber Pfizer 3/75

Pocket Properties

Number of interacting chains Pocket size SiteScore Dscore Exposure Enclosure Hydrophobicity Hydrophilicity Donor/Acceptor Volume RNA environment global RNA environment detailed RNA family global RNA family chains With binding affinity values Only one non-redundant filter can be selected at a time Non-redundant only Non-redundant only (RNA)

23 Complexes found

Complexes per page

60 120 180

filters used: RNA family global: mRNA

Select this complex

Structural basis for stabilization of the tau pre-mRNA splicing regulatory element by Novantrone (Mitoxantrone)

SM: MIX

Select this complex

Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 Protein in complex with capped RNA fragment

SM: SAM

Select this complex

Crystal structure of the tRNA-like structure from Turnip Yellow Mosaic Virus (TYMV), a tRNA mimicking RNA

SM: SPM

Select this complex

Structure of bacterial 30S-IF1-IF2-IF3-mRNA-tRNA translation pre-initiation complex(state-III)

SM: FME

Select this complex

Bat Influenza A polymerase elongation complex with incoming UTP analogue (core + endonuclease only)

SM: 2KH

Select this complex

Bat Influenza A polymerase elongation complex with incoming UTP analogue (complete polymerase)

SM: 2KH

Select this complex

Solution Structure of the Tau pre-mRNA Exon 10 Splicing Regulatory Element Bound to MH5

SM: QSV

Select this complex

Solution Structure of the Tau pre-mRNA Exon 10 Splicing Regulatory Element Bound to MQC

SM: MQC

Select this complex

Solution Structure of the Tau pre-mRNA Exon 10 Splicing Regulatory Element Bound to MIP

SM: QSY

Select this complex

Human pre-Bact-2 spliceosome

SM: IHP

Select this complex

Influenza A/H7N9 polymerase elongation complex

SM: 2TM

Select this complex

Early transcription elongation state of influenza A/H7N9 polymerase stalled with incoming GTP analogue

SM: G2P

Select this complex

Cutibacterium acnes 70S ribosome with mRNA, P-site tRNA and Sarecycline bound

SM: V7A

Select this complex

CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH A/P/E-site tRNA AND mRNA : PARENTAL STRAIN

SM: A1H4F

Select this complex

SARS-CoV-2 replication-transcription complex bound to RNA-nsp9 and GDP-betaS, as a pre-catalytic deRNAylation/mRNA capping intermediate

SM: VSN

Select this complex

Codon sampling state obtained from Anisomycin-treated mammalian ribosomes

SM: ANM SPM

Select this complex

Codon sampling state of elongation inhibitor-treated mammalian ribosomes obtained from merged datasets

SM: 5GP ANM

Select this complex

Post-decoding/Post-hydrolysis state obtained from Anisomycin-treated mammalian ribosomes

SM: ANM

Select this complex

Post-decoding post-hydrolysis state obtained from merged datasets of elongation inhibitor-treated mammalian ribosomes

SM: ANM

Select this complex

CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA : LM32CS1C1 M2 OE MUTANT

SM: PAR

Select this complex

Complex 1 30S-IF1-IF2-IF3-GE81112

SM: A1IC4

Select this complex

CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH P/E-site tRNA AND mRNA : LM14Cs1H3 sKO STRAIN

SM: A1IWA

Select this complex

Structure of WT E.coli ribosome 70S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site (R) beta-2-hydroxy-BocLysine acid charged NH-tRNAPyl

SM: PAR SPM

1 of 1
Go to page

Experimental method

Experimental resolution

Select cutoff values for experimental resolution (Å)

Current selection range: to

Molecular Weight

Select cutoff values for molecular weight of the system complex (kDa)

Current selection range: to

Deposition date

Select cutoff values for the deposition date (years) of the PDB entries

Current selection range: to

Molecular composition of the system

RNA

RNA/Protein

Source organism

Alphainfluenzavirus

Betacoronavirus

Betainfluenzavirus

Bos

Cutibacterium

Escherichia

Homo

Leishmania

Thermus

Tymovirus

Molecular weight

Select cutoff values for molecular weight of the compound (Da)

Current selection range: to

Number of atoms

Select cutoff values for the number of atoms of the compounds

Current selection range: to

Number of PDB entries

Select cutoff values for the number of PDB entries where the compounds have been resolved

Current selection range: to

Number of interacting chains

Select cutoff values for the number of interacting RNA chains in the pockets

Current selection range: to

Pocket size

Select cutoff values for the number of heavy RNA atoms in the pocket

Current selection range: to

SiteScore

Select cutoff values for the SiteScore, ligandability score calcultated by Schrödinger tool. Below 0.8 the pocket is considered non-drug binding site, between 0.8 and 1.0 a potential drug binding site, and above 1.0 a promising binding site [TODO add ref]

Current selection range: to

Dscore

Select cutoff values for the Dscore, druggability score calcultated by Schrödinger tool. Below 0.83 the pocket is considered undraggable, between 0.83 and 0.98 difficult, and above 0.98 druggable [TODO add ref]

Current selection range: to

Exposure

Select cutoff values for the exposure, a score calculated by Schrödinger tool which indicates the degree of exposure to the solvent of the pocket (AU)

Current selection range: to

Enclosure

Select cutoff values for the enclosure, a score calculated by Schrödinger tool which indicates the degree of buriedness of the pocket (AU)

Current selection range: to

Hydrophobicity

Select cutoff values for the hydrophobicity, a score calculated by Schrödinger tool which indicates the degree of hydrophobicity of the pocket (AU)

Current selection range: to

Hydrophilicity

Select cutoff values for the hydrophilicity, a score calculated by Schrödinger tool which indicates the degree of hydrophilicity of the pocket (AU)

Current selection range: to

Donor/Acceptor

Select cutoff values for Donor/Acceptor character of the pocket calculated by Schrödinger tool

Current selection range: to

Volume

Select cutoff values for volume of the pocket calculated by Schrödinger tool (Å³)

Current selection range: to

RNA environment global

RNA

RNA/DNA

RNA/DNA/Protein

RNA/Other

RNA/Protein

RNA environment detailed

DNA

ion

other

protein

RNA-only

RNA family global

RNA/DNA_hybrid

TAR_rna

aptamer_rna

mRNA

multiple

rRNA

riboswitch

ribozyme

snRNA

sre_rna

synthetic construct

tRNA

telomerase_RNA

unknown

RNA family chains

aptamer_rna

mRNA

riboswitch

ribozyme

RNA/DNA_hybrid

rRNA

snRNA

sre_rna

synthetic construct

TAR_rna

telomerase_RNA

tRNA

unknown

25-28 Rue du Dr ROUX,
75015 Paris

01 45 68 80 00

About
Contact
Credits
Policies