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(-) Description

Title :  INTERPLAY OF STRUCTURE, HYDRATION AND THERMAL STABILITY IN FORMACETAL MODIFIED OLIGONUCLEOTIDES: RNA MAY TOLERATE HYDROPHOBIC MODIFICATIONS BETTER THAN DNA
 
Authors :  M. Egli, P. S. Pallan
Date :  08 Jun 09  (Deposition) - 27 Oct 09  (Release) - 25 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Dna, Rna, Formacetal-Dna, Rna Hydration (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kolarovic, E. Schweizer, E. Greene, M. Gironda, P. S. Pallan, M. Egli, E. Rozners
Interplay Of Structure, Hydration And Thermal Stability In Formacetal Modified Oligonucleotides: Rna May Tolerate Nonionic Modifications Better Than Dna.
J. Am. Chem. Soc. V. 131 14932 2009
PubMed-ID: 19824732  |  Reference-DOI: 10.1021/JA904926E

(-) Compounds

Molecule 1 - 5'-D(*GP*CP*GP*(US4)P*(OMU))P*AP*CP*GP*C)-3'
    Chains: A
    Engineered: YES
    Organism Taxid: 32630
    Other Details: CHEMICALLY SYNTHESIZE DEOXYRIBONUCLEOTIDE, US4 = FORMACETAL LINKED THYMIDINE AND 2'-DEOXYADENOSINE (TFA)
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1OMU1Mod. NucleotideO2'-METHYLURIDINE 5'-MONOPHOSPHATE
2US41Mod. Nucleotide[(2R,3S,5R)-3-({[(2R,3S,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXYTETRAHYDROFURAN-2-YL]METHOXY}METHOXY)-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN PHOSPHATE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1OMU2Mod. NucleotideO2'-METHYLURIDINE 5'-MONOPHOSPHATE
2US42Mod. Nucleotide[(2R,3S,5R)-3-({[(2R,3S,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXYTETRAHYDROFURAN-2-YL]METHOXY}METHOXY)-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN PHOSPHATE

(-) Sites  (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:DNA/RNA  Length:9
                                        
                  3hr3 A  1 GCGxuACGC 10
                               ||    
                               ||    
                               4-US4 
                                6-OMU
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