SWISS-MODEL Repository - Model Details

Model Overview
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1
440

Sequence
UniProt Q8QZW7
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q8QZW7: 10090.ENSMUSP000

Domain
Link to: [ InterPro ]
Neur_chan_LBD
Neur_chan_memb

Model 3D Structure
Model information:
Modelled residue range: 271 to 331
Based on template: [ 1vry ]  
Sequence Identity [%]: 52%
Model date: 2013-02-23
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (1vry): MONOMER
Model built: 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       VPARTCIG VTTVLSMTTL MIGSRTSLPN TNCFIKAIDV YLGICFSFVF
1vryA     65533    lparvglg ittvltlttq ssgsraslpk vs-yvkaidi wlavcllfvf
                                                                      
TARGET              hhhhhh hhhhhhhhhh hh                    hhhhhhhhhh
1vryA               hhhhhh hhhhhhhhhh hh         hh hhhh    hhhhhhhhhh


TARGET    49    GALLEYAVAH YSS                                        
1vryA     44    salleyaavn fvsr                                       
                                                                      
TARGET          hhhhhhhhhh hh                                         
1vryA           hhhhhhhhhh hh

Quality 


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

 
Quaternary Structure Annotation of the Template 
 1vry is annotated as MONOMER 
 The template structure (1vry) was solved by NMR and does not contain any quaternary structure annotation 
 The template is annotated by the number of chains found in the PDB file 
      
 
Quaternary Structure Modelling of the Target Protein 
 The target and template sequences are too diverse (seqid: 52.459) to infer a conservation of the oligomeric state 
 Please use the advancend features of the SwissModel Project Mode 
       
 The target structure was calculated as SINGLE CHAIN

Template Selection 
 - Start SMR-Pipeline for:7c152fe77183086f67c0158604f1c1d1 on BC2-cluster at Sat Feb 23 02:50:36
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
 - No template with F found
 - No template with G found
 - No template with H found
 - No template with I found
 - No template with J found
 - No template with K found
 - No template with L found
 - No template with M found
 - No template with N found
 - No template with O found
 - No template with F found
 - No template with G found
 - No template with H found
 - No template with I found
 - No template with J found
 - No template with K found
 - No template with L found
 - No template with M found
 - No template with N found
 - No template with O found
 - No template with F found
 - No template with G found
 - No template with H found
 - No template with I found
 - No template with J found
 - No template with K found
 - No template with L found
 - No template with M found
 - No template with N found
 - No template with O found
 - No template with F found
 - No template with G found
 - No template with H found
 - No template with I found
 - No template with J found
 - No template with K found
 - No template with L found
 - No template with M found
 - No template with N found
 - No template with O found
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:3): model based on new templates
 - Send 3 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                  ***********
 - building model based on 1vryA (271-331) was successful 
 -         ****************************************************
 - building model based on 3rhwE (44-329) was successful 
 -               ************************************************
 - building model based on 3uu3B (77-338) 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:7c152fe77183086f67c0158604f1c1d1 on BC2-cluster at Sat Feb 23 03:19:16
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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