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(-) Description

Title :  SAM-I RIBOSWITCH WITH A G2NA MUTATION IN THE KINK TURN IN COMPLEX WITH S-ADENOSYLMETHIONINE
 
Authors :  K. Schroeder, P. Daldrop, D. Lilley
Date :  17 Apr 11  (Deposition) - 07 Sep 11  (Release) - 21 Sep 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. T. Schroeder, P. Daldrop, D. M. J. Lilley
Rna Tertiary Interactions In A Riboswitch Stabilize The Structure Of A Kink Turn.
Structure V. 19 1233 2011
PubMed-ID: 21893284  |  Reference-DOI: 10.1016/J.STR.2011.07.003

(-) Compounds

Molecule 1 - SAM-I RIBOSWITCH
    Chains: A
    Organism Scientific: THERMOANAEROBACTER TENGCONGENSIS
    Organism Taxid: 119072
    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  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION
2NA4Ligand/IonSODIUM ION
3SAM1Ligand/IonS-ADENOSYLMETHIONINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1K-1Ligand/IonPOTASSIUM ION
2NA-1Ligand/IonSODIUM ION
3SAM2Ligand/IonS-ADENOSYLMETHIONINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREU A:7 , C A:8 , A A:10 , G A:11 , A A:45 , A A:46 , C A:47 , U A:57 , G A:58 , C A:59 , U A:88 , G A:89 , HOH A:2004 , HOH A:2006BINDING SITE FOR RESIDUE SAM A1096
2AC2SOFTWAREA A:10 , G A:11 , U A:64 , HOH A:2005BINDING SITE FOR RESIDUE NA A1097
3AC3SOFTWAREG A:74BINDING SITE FOR RESIDUE K A1098
4AC4SOFTWAREG A:13BINDING SITE FOR RESIDUE NA A1099
5AC5SOFTWAREG A:32 , A A:33 , HOH A:2013 , HOH A:2014BINDING SITE FOR RESIDUE NA A1100
6AC6SOFTWAREHOH A:2015 , HOH A:2016BINDING SITE FOR RESIDUE NA A1101

(-) SS Bonds  (0, 0)

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

(-) 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)

(no "Exon" information available for 2YGH)

(-) Sequences/Alignments

Asymmetric Unit
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(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:DNA/RNA  Length:95
                                                                                                                              
                  2ygh A  1 GGCUUAUCAAGAGAGGUGAAGGGACUGGCCCGACGAAACCCGGCAACCAGAAAUGGUGCCAAUUCCUGCAGCGGAAACGUUGAAAGAUGAGCCGA 95
                                    10        20        30        40        50        60        70        80        90
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2YGH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

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(-) Related Entries Specified in the PDB File

2ydh CRYSTAL STRUCTURE OF THE SAM-I RIBOSWITCH A94G U34 G18U G19U VARIANT IN COMLEX WITH SAM