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(-) Description

Title :  AN ALL-RNA HAIRPIN RIBOZYME A38N1DA VARIANT WITH A PRODUCT MIMIC SUBSTRATE STRAND
 
Authors :  R. C. Spitale, R. Volpini, M. G. Heller, J. Krucinska, G. Cristalli, J. E. Wedekind
Date :  26 Mar 09  (Deposition) - 21 Apr 09  (Release) - 12 May 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym./Biol. Unit :  A,C
Keywords :  Hairpin Ribozyme, Rna Ribozyme, N1-Deazaadenosine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. C. Spitale, R. Volpini, M. G. Heller, J. Krucinska, G. Cristalli, J. E. Wedekind
Identification Of An Imino Group Indispensable For Cleavage By A Small Ribozyme.
J. Am. Chem. Soc. V. 131 6093 2009
PubMed-ID: 19354216  |  Reference-DOI: 10.1021/JA900450H
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA (25-MER)
    Chains: A
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - RNA (36-MER)
    Chains: C
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1NCO2Ligand/IonCOBALT HEXAMMINE(III)
2S9L1Ligand/Ion2-[2-(2-HYDROXYETHOXY)ETHOXY]ETHYL DIHYDROGENPHOSPHATE
3SO41Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREU A:1 , G A:25 , G C:27 , A C:43BINDING SITE FOR RESIDUE S9L A 26
2AC2SOFTWAREA C:32 , G C:33 , A C:53 , U C:54BINDING SITE FOR RESIDUE NCO C 1
3AC3SOFTWAREC A:2 , C A:3 , G A:23 , G A:24 , G A:25 , SO4 A:28BINDING SITE FOR RESIDUE NCO A 27
4AC4SOFTWAREU A:1 , C A:2 , NCO A:27BINDING SITE FOR RESIDUE SO4 A 28

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GS5)

(-) 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:25
                                                        
                  3gs5 A  1 UCCCAGUCCACCGCGGUGAGAAGGG 25
                                    10        20     


Chain C from PDB  Type:RNA  Length:36
                                                                   
                  3gs5 C 27 GGCAGAGAAACACACGAUCGUGGUACAUUACCUGCC 62
                                    36        46        56
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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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 Related Entries

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

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(-) Related Entries Specified in the PDB File

3gs1 3gs8