SWISS-MODEL Repository - Model Details

Model Overview
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1
194

Sequence
UniProt P53163
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
P53163: 4932.YGL068W

Domain
Link to: [ InterPro ]
Ribosomal_L12

Model 3D Structure
Model information:
Modelled residue range: 139 to 194
Based on template: [ 2xux ]  
Sequence Identity [%]: 57%
Model date: 2013-02-18
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (2xuxL): Unknown
Model: SINGLE CHAIN

Ligand information: [details]
Ligands in the template: none.
Ligands in the model: none.
Template Links: [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  
display model: in [ AstexViewer ]
download model: as [ pdb ] - as [ Deepview project ]

This model has not been updated since 2013-01-30. In the meantime, new template structures may have become available which would allow building a more reliable model. Would you like to submit the target protein to SWISS-MODEL Workspace and build a new model now? [ Submit ]



Alignment 

TARGET    1                   KAKVIKE VKGLLGLSLV EAKKFVEAAP KVLKENVAKD
2xuxL     54    fdvilkaaga n--kvavika vrgatglglk eakdlvesap aalkegvskd
                                                                      
TARGET                         hhhhhh hhhhh   hh hhhhhhh            hh
2xuxL           ssssss        hhhhhhh hhhh    hh hhhhhhh    ssssss  hh


TARGET    38    DAEKIKKTLE DLGAKVSLE                                  
2xuxL     102   daealkkale eagaevevk-                                 
                                                                      
TARGET          hhhhhhhhhh hh                                         
2xuxL           hhhhhhhhhh hh  sssss

Quality 


Template's ligands section 
Template without ligands. 
No ligands were included in the model.

 
Oligomer Annotation of the Template structure 
 Sorry, we haven't found any oligomeric annotation for this template. 
 Either the complex was too large (>60 chains) or the structures was excluded for other reasons. 
 Please contact help@swissmodel.org for more information!

Template Selection 
 - Start SMR-Pipeline for:4326a8359883a525940e2b526decc01c on BC2-cluster at Mon Feb 18 21:28:08
2013 


 - Analyze BLAST summary ... 
 - No templates found with BLAST (seqid-cutoff: 60): go to HHSEARCH

 - Run HHSearch to detect more templates...
FATAL - No templates found in HHSEARCH, strange
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:1): model based on new templates
 - Send 1 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                          ***********************
 - building model based on 2xuxL (139-194) was successful 
 - Repository Pipeline parameter

   Cut-off parameters to model the target based on a BLAST target-template alignment
    Evalue :                                     0.0001
    Minimum Template size (aa) for ranking :     25
    Minimum Sequence identity :                  60

   Cut-off parameters to model the target based on a HHSearch target-template alignment
    Evalue :                                     0.0001
    Probability :                                50
    MAC :                                        0.3

   Parameters for model selection
    Minimal number of uncovered target
     residues after BLAST to run HHSEARCH :      50
    Minimal number of uncovered target
     residues to model an additional template :  25
    
 - Finish SMR-Pipeline for:4326a8359883a525940e2b526decc01c on BC2-cluster at Mon Feb 18 21:29:26
2013

no data available!
Downloads
Reference

If you are using models from the SWISS-MODEL Repository, please cite the following articles:

- Kiefer F, Arnold K, Künzli M, Bordoli L, Schwede T (2009).
The SWISS-MODEL Repository and associated resources.
Nucleic Acids Res. 37, D387-D392.

- Jürgen Kopp and Torsten Schwede (2004)
The SWISS-MODEL Repository of annotated three-dimensional protein structure homology models.
Nucleic Acids Res. 32, D230-D234.
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