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(-) Description

Title :  MINIMALLY HINGED HAIRPIN RIBOZYME INCORPORATES ADE38(2AP) AND 2',5'-PHOSPHODIESTER LINKAGE MUTATIONS AT THE ACTIVE SITE
 
Authors :  C. Macelrevey, J. Krucinska, J. E. Wedekind
Date :  02 Nov 07  (Deposition) - 12 Aug 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Hairpin Ribozyme; 2'5' Phosphodiester; Rna; 2-Aminopurine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Macelrevey, J. D. Salter, J. Krucinska, J. E. Wedekind
Structural Effects Of Nucleobase Variations At Key Active Site Residue Ade38 In The Hairpin Ribozyme.
Rna V. 14 1600 2008
PubMed-ID: 18596253  |  Reference-DOI: 10.1261/RNA.1055308
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LOOP A SUBSTRATE STRAND
    Chains: A
    Engineered: YES
    Other Details: 2'5' PHOSPHODIESTER LINKAGE BETWEEN A5 AND G6
    Other Details - Source: SOLID-PHASE SYNTHESIS AT KECK INSTITUTE, YALE
    Synthetic: YES
 
Molecule 2 - 29-MER LOOP A AND LOOP B RIBOZYME STRAND
    Chains: B
    Engineered: YES
    Other Details: SYNTHETIC POLYETHYLENE GLYCOL LINKER AT HINGE POSITION 14
    Other Details - Source: SOLID PHASE CHEMICAL SYNTHESIS AT DHARMACON, COLORADO
    Synthetic: YES
 
Molecule 3 - LOOP B S-TURN STRAND
    Chains: C
    Engineered: YES
    Mutation: YES
    Other Details: SOLID PHASE CHEMICAL SYNTHESIS AT DHARMACON, COLORADO
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1MTU1Mod. Nucleotide9-BETA-D-RIBOFURANOSYL-9H-PURIN-2-AMINE
2NCO2Ligand/IonCOBALT HEXAMMINE(III)
3S9L1Mod. Nucleotide2-[2-(2-HYDROXYETHOXY)ETHOXY]ETHYL DIHYDROGENPHOSPHATE
4SO41Ligand/IonSULFATE ION

(-) Sites  (0, 0)

(no "Site" information available for 3B91)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3B91)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric/Biological Unit
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Chain A from PDB  Type:RNA  Length:13
                                            
                  3b91 A  1 UCCCAGUCCACCG 13
                                    10   


Chain B from PDB  Type:DNA/RNA  Length:30
                                                             
                  3b91 B  2 CGGUGAGAAGGGxGGCAGAGAAACACACGA 31
                                    11  |     21        31
                                       14-S9L             


Chain C from PDB  Type:RNA  Length:19
                                                  
                  3b91 C 31 UCGUGGUaCAUUACCUGCC 49
                                   |40         
                                  38-MTU
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

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  3b91
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

2p7f THE NOVEL USE OF A 2',5'-PHOSPHODIESTER LINKAGE AS A REACTION INTERMEDIATE AT THE ACTIVE SITE OF A SMALL RIBOZYME
3b58
3b5a
3b5f
3b5s