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(-) Description

Title :  A MODEL FOR A FIVE-PRIME STACKED TRNA
 
Authors :  A. B. Simonson, J. A. Lake
Date :  10 Jan 02  (Deposition) - 22 Mar 02  (Release) - 22 Mar 02  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  B
Keywords :  Five-Prime Stack, Trna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. B. Simonson, J. A. Lake
The Transorientation Hypothesis For Codon Recognition During Protein Synthesis
Nature V. 416 281 2002
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHENYLALANINE TRANSFER RNA
    Chains: B
    Organism Common: YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE

 Structural Features

(-) Chains, Units

  
Theoretical Model : 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (11, 14)

Theoretical Model (11, 14)
No.NameCountTypeFull Name
11MA1Mod. Nucleotide6-HYDRO-1-METHYLADENOSINE-5'-MONOPHOSPHATE
22MG1Mod. Nucleotide2N-METHYLGUANOSINE-5'-MONOPHOSPHATE
35MC2Mod. Nucleotide5-METHYLCYTIDINE-5'-MONOPHOSPHATE
45MU1Mod. Nucleotide5-METHYLURIDINE 5'-MONOPHOSPHATE
57MG1Mod. Nucleotide7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE
6H2U2Mod. Nucleotide5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
7M2G1Mod. NucleotideN2-DIMETHYLGUANOSINE-5'-MONOPHOSPHATE
8OMC1Mod. NucleotideO2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE
9OMG1Mod. NucleotideO2'-METHYLGUANOSINE-5'-MONOPHOSPHATE
10PSU2Mod. NucleotidePSEUDOURIDINE-5'-MONOPHOSPHATE
11YG1Mod. ResidueWYBUTOSINE

(-) Sites  (0, 0)

(no "Site" information available for 1KS1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1KS1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1KS1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KS1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1KS1)

(-) Exons   (0, 0)

(no "Exon" information available for 1KS1)

(-) Sequences/Alignments

Theoretical Model
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain B from PDB  Type:RNA  Length:76
                                                                                                           
                  1ks1 B  1 GCGGAUUUAgCUCAGuuGGGAGAGCgCCAGAcUgAAgAucUGGAGgUCcUGUGuuCGaUCCACAGAAUUCGCACCA 76
                                    10     || 20     |  30 | |  | 40     |  50   ||  |60        70      
                                    10-2MG ||       26-M2G | |  | ||     |  |    55-PSU                 
                                          16-H2U          32-OMC| ||     |  |    |  58-1MA              
                                           17-H2U           34-OMG||     |  |    |                      
                                                               37-YG     |  |    |                      
                                                                 39-PSU  |  |    |                      
                                                                  40-5MC |  |    |                      
                                                                        46-7MG   |                      
                                                                           49-5MC|                      
                                                                                54-5MU
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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 1KS1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1KS1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1KS1)

(-) Gene Ontology  (0, 0)

Theoretical Model(hide GO term definitions)
    (no "Gene Ontology" information available for 1KS1)

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  1ks1
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

1l1u THEORETICAL MODEL FOR INITIAL BINDING TO THE SMALL RIBOSOMAL SUBUNIT OF TERNARY COMPLEX DURING THE ELONGATION PHASE OF PROTEIN SYNTHESIS