HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Compounds
RNA-SM complexes
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System Properties

Experimental technique Experimental resolution Molecular weight Deposition date Molecule type Organism

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 Non-redundant only

862 Complexes found

Complexes per page

60 120 180

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Escherichia coli paused disome complex (queueing 70S non-rotated closed PRE state)

SM: ATP

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Solution structure of Risdiplam bound to the RNA duplex formed upon 5'-splice site recognition

SM: Y59

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Solution structure of branaplam bound to the RNA duplex formed upon 5'-splice site recognition

SM: Y53

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Solution structure of SMN-CX bound to the RNA helix formed upon SMN2 exon7 5'-splice site recognition

SM: YB3

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RNA duplex bound with GpppA dinucleotide ligand

SM: G3A

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GpppA dinucleotide ligand binding to RNA UC template

SM: G3A

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GpppA dinucleotide binding to RNA CU template

SM: G3A

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RNA duplex bound with GMP and AMP monomers

SM: AMP

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RNA UU template binding to AMP monomer

SM: AMP

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RNA duplex bound with imidazolium bridged GA dinucleotide

SM: WZW

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Cryo-EM structure of the Escherichia coli 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs

SM: AKN

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Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site formyl-MAI-tripeptidyl-tRNA analog ACCA-IAMf at 2.65A resolution

SM: ARG

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Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site formyl-MFI-tripeptidyl-tRNA analog ACCA-IFMf at 2.60A resolution

SM: ARG

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Structure of Mango II aptamer bound to T01-6A

SM: VK0

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Structure of Mango II aptamer bound to T01-6A-B

SM: VKI

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Structure of Mango II variant aptamer bound to T01-6A-B

SM: VLR

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Structure of Mango II variant aptamer bound to T01-7M-B

SM: W6F

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Structure of Mango II variant2 aptamer bound to T01-6A

SM: VK0

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yjdF riboswitch from R. gauvreauii in complex with chelerythrine bound to Fab BL3-6 S97N

SM: CTI

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yjdF riboswitch from R. gauvreauii in complex with proflavine bound to Fab BL3-6 S97N

SM: PRL

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Magnesium catalyzed primer extension product with 14mer primer and mixed phosphorothioate activated G monomer

SM: DGP

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Cadmium catalyzed primer extension product with 14mer primer and mixed phosphorothioate activated G monomer

SM: DGP

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Experimental method

Electron Microscopy

Solution NMR

X-ray

Experimental resolution

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Molecular Weight

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Deposition date

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Molecular composition of the system

RNA

RNA/DNA

RNA/DNA/Protein

RNA/Protein

Source organism

Acidobacterium

Acinetobacter

Arabidopsis

Bacillus

Bifidobacterium

Caldanaerobacter

Candida

Candidatus Koribacter

Candidatus Pelagibacter

Clostridium

Cutibacterium

Deinococcus

Didymium

Enterovirus

Escherichia

Faecalibacterium

Fusobacterium

Geobacter

Gloeobacter

Haloarcula

Hepacivirus

Homo

Ideonella

Lacticaseibacillus

Lactococcus

Leishmania

Lentivirus

Listeria

Mesoplasma

Mesorhizobium

Mus

Mycobacterium

Mycolicibacterium

Mycoplasmoides

Nicotiana

Oceanobacillus

Oryctolagus

Pseudomonas

Pylaiella

Ralstonia

Roseobacter

Ruminococcus

Saccharomyces

Schaalia

Staphylococcus

Streptococcus

Sulfobacillus

Sus

Syntrophothermus

Tetrahymena

Thermoanaerobacter

Thermotoga

Thermovirga

Thermus

Tymovirus

Varicellovirus

Vibrio

Molecular weight

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Number of atoms

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Number of PDB entries

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Number of interacting chains

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Pocket size

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SiteScore

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Dscore

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Exposure

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Enclosure

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Hydrophobicity

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Hydrophilicity

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Donor/Acceptor

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Volume

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