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(-) Description

Title :  1.66 A STRUCTURE OF A-DUPLEX WITH BULGED ADENOSINE, SPERMINE FORM
 
Authors :  V. Tereshko, S. Wallace, N. Usman, F. Wincott, M. Egli
Date :  12 Feb 01  (Deposition) - 21 Apr 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.66
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Adenine Bulge, A-Type Na, Dna/Rna Hybrid, Dna-Rna Hybrid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Tereshko, S. T. Wallace, N. Usman, F. E. Wincott, M. Egli
X-Ray Crystallographic Observation Of "In-Line" And "Adjacent" Conformations In A Bulged Self-Cleaving Rna/Dna Hybrid.
Rna V. 7 405 2001
PubMed-ID: 11333021  |  Reference-DOI: 10.1017/S1355838201001935
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA/RNA (5'-R(*GP*CP*G)-D(P*AP*TP*AP*T)- R(P*AP*CP*GP*U)-3')
    Chains: A, B, C, D, E, F
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1SPM1Ligand/IonSPERMINE
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1SPM-1Ligand/IonSPERMINE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1SPM1Ligand/IonSPERMINE
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1SPM-1Ligand/IonSPERMINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREG A:1 , C A:2 , G B:30 , U B:31 , HOH B:399 , G C:101 , HOH C:310 , C D:129 , G D:130 , U D:131BINDING SITE FOR RESIDUE SPM D 300

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1I2Y)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1I2Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) Exons   (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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  UniProt sequence: complete  aligned part    
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Chain A from PDB  Type:DNA/RNA  Length:11
                                           
                 1i2y A   1 GCGATATACGU  11
                                    10 


Chain B from PDB  Type:DNA/RNA  Length:11
                                           
                 1i2y B  21 GCGATATACGU  31
                                    30 


Chain C from PDB  Type:DNA/RNA  Length:11
                                           
                 1i2y C 101 GCGATATACGU 111
                                   110 


Chain D from PDB  Type:DNA/RNA  Length:11
                                           
                 1i2y D 121 GCGATATACGU 131
                                   130 


Chain E from PDB  Type:DNA/RNA  Length:11
                                           
                 1i2y E 201 GCGATATACGU 211
                                   210 


Chain F from PDB  Type:DNA/RNA  Length:11
                                           
                 1i2y F 221 GCGATATACGU 231
                                   230
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1I2Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1I2Y)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

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  1i2y
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