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(-) Description

Title :  CRYSTAL STRUCTURE OF MOUSE TRNA(SEC)
 
Authors :  M. C. Wahl, O. M. Ganichkin, E. A. Anedchenko
Date :  07 Apr 11  (Deposition) - 08 Jun 11  (Release) - 11 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Biol. Unit 4:  A (1x),B (1x)
Keywords :  Metal Binding By Rna, Rna Hydration, Structural Flexibility, Trnasec, Trna Fold, Translation, Serrs, Secs, Pstk, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. M. Ganichkin, E. A. Anedchenko, M. C. Wahl
Crystal Structure Analysis Reveals Functional Flexibility I The Selenocysteine-Specific Trna From Mouse.
Plos One V. 6 20032 2011
PubMed-ID: 21629646  |  Reference-DOI: 10.1371/JOURNAL.PONE.0020032

(-) Compounds

Molecule 1 - TRNA(SEC)
    Chains: A, B
    Engineered: YES
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: RNA 86-MER
    Other Details - Source: SYNTHESIZED BY IN VITRO TRANSCRIPTION
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB
Biological Unit 4 (1x): A (1x)B (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2GOL2Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL1Ligand/IonGLYCEROL
3SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL1Ligand/IonGLYCEROL
3SO41Ligand/IonSULFATE ION
Biological Unit 3 (3, 6)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2GOL2Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION
Biological Unit 4 (3, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL1Ligand/IonGLYCEROL
3SO41Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREC A:10 , C A:11 , HOH A:118 , HOH A:142 , HOH A:157BINDING SITE FOR RESIDUE SO4 A 73
2AC2SOFTWAREC B:10 , C B:11 , HOH B:168BINDING SITE FOR RESIDUE SO4 B 73
3AC3SOFTWAREC A:10 , U A:26 , G A:27 , HOH A:129 , G B:25 , ACT B:75 , HOH B:79BINDING SITE FOR RESIDUE GOL A 74
4AC4SOFTWAREG A:30 , G A:31 , HOH A:175 , HOH A:191 , G B:30 , G B:31 , U B:41 , HOH B:193 , HOH B:195BINDING SITE FOR RESIDUE GOL B 74
5AC5SOFTWAREC A:11 , GOL A:74 , HOH A:129 , C B:10 , U B:26 , G B:27 , HOH B:139BINDING SITE FOR RESIDUE ACT B 75
6AC6SOFTWAREG A:22BINDING SITE FOR RESIDUE ACT A 75

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RG5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RG5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RG5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3RG5)

(-) Exons   (0, 0)

(no "Exon" information available for 3RG5)

(-) 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
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:RNA  Length:86
                                                                                                                      
                 3rg5 A   1 GCCCGGAUGAUCCUCAGUGGUCUGGGGUGCAGGCUUCAAACCUGUAGCUGUUUAGCGACAGAGUGGUUCAAUUCCACCUUUCGGGC  72
                                 ||  8       |19 |      28        38       47A|||||||47K|||     57      |67A|     
                                5A|         16|  |                         47A||||||47J||||            64| ||     
                                 5B          18  |                          47B||||||47K|||             66 ||     
                                               20A                           47C||||||47L||              67A|     
                                                                              47D|||||  48|               67B     
                                                                               47E||||   50                       
                                                                                47F|||                            
                                                                                 47G||                            
                                                                                  47H|                            
                                                                                   47I                            


Chain B from PDB  Type:RNA  Length:86
                                                                                                                      
                 3rg5 B   1 GCCCGGAUGAUCCUCAGUGGUCUGGGGUGCAGGCUUCAAACCUGUAGCUGUUUAGCGACAGAGUGGUUCAAUUCCACCUUUCGGGC  72
                                 ||  8       |19 |      28        38       47A|||||||47K|||     57      |67A|     
                                5A|         16|  |                         47A||||||47J||||            64| ||     
                                 5B          18  |                          47B||||||47K|||             66 ||     
                                               20A                           47C||||||47L||              67A|     
                                                                              47D|||||  48|               67B     
                                                                               47E||||   50                       
                                                                                47F|||                            
                                                                                 47G||                            
                                                                                  47H|                            
                                                                                   47I
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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 3RG5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RG5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3RG5)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3RG5)

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