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Sequence, Chains, Asymmetric and Biological Units

Title THE STRUCTURE OF THE G. VIOLACEUS GUANIDINE II RIBOSWITCH P2
Keywords GUANIDINE II RIBOSWITCH, STEM-LOOP, TETRA LOOP, DIMER, RNA
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   5NDH     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  RNA    A 16 488 33
2  RNA    B 16 489 33
3  RNA    C 16 489 33
4  RNA    D 16 467 33
5  Ligand   RNA (5'-R(*GP*(CBV) P*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*CP*GP*C)-3')  A 3 0 11
6  Ligand   RNA (5'-R(*GP*(CBV) P*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*CP*GP*C)-3')  B 3 0 11
7  Ligand   RNA (5'-R(*GP*(CBV) P*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*CP*GP*C)-3')  C 2 0 10
8  Ligand   RNA (5'-R(*GP*(CBV) P*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*CP*GP*C)-3')  D 3 0 19
9 Water     81 0 81
total       156 1933 264
Nucleic acids
Unit 1 G1 CBV2 G3 G4 G5 G6 A7 C8 G9 A10 C11 C12 C13 C14 G15 C16
Unit 2 G1 CBV2 G3 G4 G5 G6 A7 C8 G9 A10 C11 C12 C13 C14 G15 C16
Unit 3 G1 CBV2 G3 G4 G5 G6 A7 C8 G9 A10 C11 C12 C13 C14 G15 C16
Unit 4 G1 CBV2 G3 G4 G5 G6 A7 C8 G9 A10 C11 C12 C13 C14 G15 C16
Ligands
Unit 5 GAI101 NA102 MG103
Unit 6 GAI101 NA102 NA103
Unit 7 GAI101 NA102
Unit 8 GAI101 SO4102 SO4103
Chirality of ribose and phosphate atoms

Check the naming of phosphate and ribose substituents. Recommended for phosphate oxygens and for ribose hydrogens in NMR structures.

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany