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(-) Description

Title :  ALTERNATINGLY MODIFIED 2'FLUORO RNA OCTAMER F/RA2U2-R32
 
Authors :  P. S. Pallan, E. M. Greene, P. A. Jicman, R. K. Pandey, M. Manoharan, E. Ro M. Egli
Date :  06 Oct 10  (Deposition) - 05 Jan 11  (Release) - 11 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.15
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Rna, 2'-Fluoro-Rna O2'-Modification, Octamer, 2'-Fluoro 2'- Deoxycytidine, 2'-Fluoro 2'-Deoxyadenosine, 2'-Fluoro 2'- Deoxyuridine, Sirna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. S. Pallan, E. M. Greene, P. A. Jicman, R. K. Pandey, M. Manoharan, E. Rozners, M. Egli
Unexpected Origins Of The Enhanced Pairing Affinity Of 2'-Fluoro-Modified Rna.
Nucleic Acids Res. V. 39 3482 2011
PubMed-ID: 21183463  |  Reference-DOI: 10.1093/NAR/GKQ1270

(-) Compounds

Molecule 1 - 5'-R(*(CFZ)P*GP*(AF2)P*AP*(UFT)P*UP*(CFZ)P*G)-3'
    Chains: A, B
    Engineered: YES
    Other Details: CHEMICALLY SYNTHESIZED MODIFIED RNA
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric Unit (4, 11)
No.NameCountTypeFull Name
1AF22Mod. Nucleotide2'-DEOXY-2'-FLUOROADENOSINE 5'-(DIHYDROGEN PHOSPHATE)
2CFZ4Mod. Nucleotide2'-DEOXY-2'-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
3SR3Ligand/IonSTRONTIUM ION
4UFT2Mod. Nucleotide2'-DEOXY-2'-FLUOROURIDINE 5'-(DIHYDROGEN PHOSPHATE)
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1AF22Mod. Nucleotide2'-DEOXY-2'-FLUOROADENOSINE 5'-(DIHYDROGEN PHOSPHATE)
2CFZ4Mod. Nucleotide2'-DEOXY-2'-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
3SR-1Ligand/IonSTRONTIUM ION
4UFT2Mod. Nucleotide2'-DEOXY-2'-FLUOROURIDINE 5'-(DIHYDROGEN PHOSPHATE)
Biological Unit 2 (3, 16)
No.NameCountTypeFull Name
1AF24Mod. Nucleotide2'-DEOXY-2'-FLUOROADENOSINE 5'-(DIHYDROGEN PHOSPHATE)
2CFZ8Mod. Nucleotide2'-DEOXY-2'-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
3SR-1Ligand/IonSTRONTIUM ION
4UFT4Mod. Nucleotide2'-DEOXY-2'-FLUOROURIDINE 5'-(DIHYDROGEN PHOSPHATE)

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREG A:108 , HOH A:330 , HOH A:371 , CFZ B:209 , G B:210BINDING SITE FOR RESIDUE SR B 301
2AC2SOFTWAREHOH A:310 , HOH A:334 , HOH A:355 , HOH A:372 , UFT B:213 , HOH B:308 , HOH B:336 , HOH B:352 , HOH B:375BINDING SITE FOR RESIDUE SR B 302
3AC3SOFTWAREHOH B:378BINDING SITE FOR RESIDUE SR B 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3P4C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3P4C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 3P4C)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:DNA/RNA  Length:8
                                        
                 3p4c A 101 cGaAxUcG 108
                            | | | | 
                            | | | | 
                          101-CFZ | 
                            103-AF2 
                              105-UFT
                                107-CFZ


Chain B from PDB  Type:DNA/RNA  Length:8
                                        
                 3p4c B 209 cGaAxUcG 216
                            | | | | 
                            | | | | 
                          209-CFZ | 
                            211-AF2 
                              213-UFT
                                215-CFZ
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3P4C)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3P4C)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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3p4b 3p4d