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(-) Description

Title :  STRUCTURE OF THE ARABIDOPSIS THALIANA THIAMINE PYROPHOSPHATE RIBOSWITCH WITH ITS REGULATORY LIGAND
 
Authors :  S. Thore, M. Leibundgut, N. Ban
Date :  24 Apr 06  (Deposition) - 08 May 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Nucleic Acid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Thore, M. Leibundgut, N. Ban
Structure Of The Eukaryotic Thiamine Pyrophosphate Riboswitch With Its Regulatory Ligand.
Science V. 312 1208 2006
PubMed-ID: 16675665  |  Reference-DOI: 10.1126/SCIENCE.1128451

(-) Compounds

Molecule 1 - NUCLEIC ACID
    Chains: A, B
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synthetic: YES

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 24)

Asymmetric Unit (3, 24)
No.NameCountTypeFull Name
1MG10Ligand/IonMAGNESIUM ION
2OS12Ligand/IonOSMIUM ION
3TPP2Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2OS-1Ligand/IonOSMIUM ION
3TPP1Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2OS-1Ligand/IonOSMIUM ION
3TPP1Ligand/IonTHIAMINE DIPHOSPHATE

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREG A:71 , MG A:1080BINDING SITE FOR RESIDUE MG A1078
02AC2SOFTWAREA A:29BINDING SITE FOR RESIDUE MG A1079
03AC3SOFTWAREMG A:1078BINDING SITE FOR RESIDUE MG A1080
04AC4SOFTWAREG A:3 , A A:4BINDING SITE FOR RESIDUE MG A1081
05AC5SOFTWAREG A:48 , C A:65 , G A:66 , TPP A:1084BINDING SITE FOR RESIDUE MG A1082
06AC6SOFTWAREA B:29BINDING SITE FOR RESIDUE MG B1078
07AC7SOFTWAREG B:42 , G B:70BINDING SITE FOR RESIDUE MG B1079
08AC8SOFTWAREG B:48 , A B:49 , G B:66 , TPP B:1082BINDING SITE FOR RESIDUE MG B1080
09AC9SOFTWAREG B:55BINDING SITE FOR RESIDUE OS B1081
10BC1SOFTWAREG A:11 , G A:28 , G A:30 , A A:31 , C A:45 , G A:60 , C A:61 , U A:63 , C A:65 , MG A:1082BINDING SITE FOR RESIDUE TPP A1084
11BC2SOFTWAREG B:11 , G B:28 , G B:30 , A B:31 , C B:45 , G B:60 , U B:63 , G B:64 , C B:65 , G B:66 , MG B:1080BINDING SITE FOR RESIDUE TPP B1082

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CKY)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2CKY)

 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 2CKY)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:RNA  Length:77
                                                                                                            
                  2cky A  1 GGGACCAGGGGUGCUUGUUCACAGGCUGAGAAAGUCCCUUUGAACCUGAACAGGGUAAUGCCUGCGCAGGGAGUGUC 77
                                    10        20        30        40        50        60        70       


Chain B from PDB  Type:RNA  Length:77
                                                                                                            
                  2cky B  1 GGGACCAGGGGUGCUUGUUCACAGGCUGAGAAAGUCCCUUUGAACCUGAACAGGGUAAUGCCUGCGCAGGGAGUGUC 77
                                    10        20        30        40        50        60        70
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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 2CKY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2CKY)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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