SWISS-MODEL Repository - Model Details

Model Overview
Click on the bars to get more details about individual Models or experimental structures
1
836

Sequence
UniProt Q9V7N5
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q9V7N5: 7227.FBpp0288470

Domain
Link to: [ InterPro ]
V-ATPase_C

Model 3D Structure
Model information:
Modelled residue range: 598 to 703
Based on template: [ 4efa ]  
Sequence Identity [%]: 52%
Model date: 2013-02-22
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (4efa): HETERO TRIMER
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       NLQNLEKK KTGSLLTRNL ADLVKKEHFI LDSEYLTTLL VIVPKVMAND
4efaC     158     nlaaaerk ktgdlsvrsl hdivkpedfv lnsehlttvl vavpkslksd
                                                                      
TARGET                                               ssssss sssss  hhh
4efaC                                                ssssss sssss  hhh


TARGET    49    WLTNYEKITD MIVPRSSQLI QEDADYCLFN VTLFKKVAEE FKLHARERKF
4efaC     206   feksyetlsk nvvpasasvi aedaeyvlfn vhlfkknvqe fttaarekkf
                                                                      
TARGET          hh         sss    sss sss ssssss sssss  hhh hhhhhhh   
4efaC           hh         sss    sss sss ssssss sssss  hhh hhhhhhh   


TARGET    99    IVRDFVYN                                              
4efaC     256   iprefnys-                                             
                                                                      
TARGET          sss                                                   
4efaC           sss

Quality 


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

 
Quaternary Structure Annotation of the Template 
 4efa is annotated as HETERO TRIMER 
 The oligomeric state of the structure was assigned by the authors of the corresponding PDB entry 
 The following biological unit was used to build the template structure: 4efa.pdb1.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 4efa_1

Template Selection 
 - Start SMR-Pipeline for:917745d5d37116d4771e292b5778b272 on BC2-cluster at Fri Feb 22 07:00:19
2013 


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

FATAL - No A3m found

 - Run HHSearch to detect more templates...
FATAL - No templates found in HHSEARCH, strange
 - No template with K found
 - No template with J found
 - No template with G found
 - No template with E found
 - No template with G found
 - No template with E found
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:2): model based on new templates
 - Send 2 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                          **********
 - building model based on 4efaC (598-703) was successful 
 -                                                     ************************
 - building model based on 1u7lA (540-793) 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:917745d5d37116d4771e292b5778b272 on BC2-cluster at Fri Feb 22 07:02:09
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.
SWISS-MODEL is developed by the Protein Structure Bioinformatics group at the SIB - Swiss Institute of Bioinformatics & the Biozentrum University of Basel. © 2011.