SWISS-MODEL Repository - Model Details

Model Overview
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1
508

Sequence
UniProt Q9VE09
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q9VE09: 7227.FBpp0083132

Domain
Link to: [ InterPro ]
Amidase

Model 3D Structure
Model information:
Modelled residue range: 8 to 486
Based on template: [ 3h0l ]  
Sequence Identity [%]: 41%
Model date: 2013-02-22
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (3h0l): HETERO TRIMER
Model built :SINGLE CHAIN

Ligand information: [details]
Ligands in the template: ALA: 1.
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            SIK QLTASYSDGQ LSPRRVTEDA LQDALRWKTL NAFVRLTPEQ
3h0lA     1     mlwkk--sls elrellkrge vspkevve-s fydrynqtee kvkayitp-l
                                                                      
TARGET                  hh hhhhhhh      hhhhh     hhhhhhhhh hh sss    
3h0lA                   hh hhhhhhh      hhhhhh h hhhhhhhhhh hh sssss s


TARGET    44    AGQQAQDAEQ RYKLRQPISD LDGVTIAIKD NFCTKDVHTT CASRMLQDFV
3h0lA     47    ygkalkqaes lkerelp--- lfgipiavkd nilvegektt caskilenfv
                                                                      
TARGET           hhhhhhhh                sssssss sss                  
3h0lA           hhhhhhhhh                sssssss sss   sss          ss


TARGET    94    PPYDATVCSR LKQAGAVILG KTNMDQFAMG AGTVDSLYGP TKNIWSEDLN
3h0lA     94    apydatvier lkkagalivg ktnldefamg ssteysaffp tknpw-----
                                                                      
TARGET               hhhhh hhhh  ssss sss                             
3h0lA           s    hhhhh hhhh  ssss sss                             


TARGET    144   KDHWRIAGGS SGGSASAVAA GLCYAAIGSD TGGSTRNPAS YCGVVGLKPT
3h0lA     139   -dlervpggs sggsaasvav lsapvslgsd tggsirqpas fcgvigikpt
                                                                      
TARGET                      hhhhhhhhh     ssssss    hhhhhhh hh  ssss  
3h0lA                       hhhhhhhhh     ssssss    hhhhhhh hh  ssss  


TARGET    194   YGLVSRHGLI PLVNSMDVPG IFARSVSDCV AVLNTVAGPD KLDSTTIRQP
3h0lA     188   ygrvsryglv afassldqig vfgrrtedva lvlevisgwd ekdstsakvp
                                                                      
TARGET                 sss        sss sss  hhhhh hhhhhh               
3h0lA                  sss        sss sss  hhhhh hhhhhh               


TARGET    244   FTRLHLPEVG Q---IDLSTV RIGIPKEYHC HGLSAEVLET WSKVADLLEC
3h0lA     238   -----vpews eevkkevkgl kiglpkeffe yelqpqvkea fenfikelek
                                                                      
TARGET                              s sssssshhh      hhhhhh hhhhhhhhhh
3h0lA                   h    h      s sssssshhh      hhhhhh hhhhhhhhhh


TARGET    291   SGASVRQVSL PNTAASIFVY TILNQCEVAS NMARYDGIEY GHRATDERST
3h0lA     283   egfeikevsl phvkysipty yiiapseass nlarydgvry gyrakeykdi
                                                                      
TARGET          h  sssss    hh   hhh    hhhhhhhh                     h
3h0lA           h  sssss    hh   hhh    hhhhhhhh                     h


TARGET    341   EQLYALSRAE GFNDVVKTRI LTGNFLLLKK NYDHYFEKAL RVRRLIAEDF
3h0lA     333   femyartrde gfgpevkrri mlgtfalsag yydayylkaq kvrrlitndf
                                                                      
TARGET          hhhhhhhhhh    hhhhhhh hhhhhhh         hhhhh hhhhhhhhhh
3h0lA           hhhhhhhhhh    hhhhhhh hhhhhhh         hhhhh hhhhhhhhhh


TARGET    391   ARVFDSSAKE ERVDILLTPT TLTEAPLYKD FASLTNRDQC AVQDFCTQPA
3h0lA     383   lkaf------ eevdviaspt tptlp--fkf gerlenpiem ylsdiltvpa
                                                                      
TARGET          h  sss   s ss  ssssss                   hhh hh      hh
3h0lA           hh          h  ssssss                   hhh    h   hhh


TARGET    441   NMAGIPAVSI PIRLSQAGLP LSLQLMSNSL NEQLLLTVA  ----------
3h0lA     425   nlaglpaisi piaw-kdglp vggqligkhw dettllqisy lweqkfkhye
                                                                      
TARGET          hhh  sssss ss         sssssss      hhhhhhh            
3h0lA           hhh  sssss ssss s  ss sssssss      hhhhhhhh hhhhh     


TARGET          -----                                                 
3h0lA     474   kiplt                                                 
                                                                      
TARGET                                                                
3h0lA

Quality 


Template's ligands section 
Ligands in the template: ALA: 1. 
The template contains ligands that are not yet part of the pipeline. Ligands which are currently assessed are listed in the help page. 
No ligands were included in the model.

 
Quaternary Structure Annotation of the Template 
 3h0l 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: 3h0l.pdb1.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 3h0l_1

Template Selection 
 - Start SMR-Pipeline for:6f214dfc8f1dbf0393dd24e6aac8ea1a on BC2-cluster at Fri Feb 22 09:49:16
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 B found
 - No template with C found
 - No template with H found
 - No template with I found
 - No template with K found
 - No template with L found
 - No template with N found
 - No template with O found
 - No template with Q found
 - No template with R found
 - No template with B found
 - No template with C found
 - No template with T found
 - No template with U found
 - No template with E found
 - No template with F found
 - No template with W found
 - No template with X found
 - No template with B found
 - No template with C found
 - No template with T found
 - No template with U found
 - No template with E found
 - No template with F found
 - No template with W found
 - No template with X found
 - No template with H found
 - No template with I found
 - No template with K found
 - No template with L found
 - No template with N found
 - No template with O found
 - No template with Q found
 - No template with R found
 - No template with K found
 - No template with L found
 - No template with N found
 - No template with O found
 - No template with Q found
 - No template with R found
 - No template with B found
 - No template with C found
 - No template with T found
 - No template with U found
 - No template with E found
 - No template with F found
 - No template with W found
 - No template with X found
 - No template with H found
 - No template with I found
 - No template with A found
 - No template with B found
 - No template with C found
 - No template with D found
 - No template with F found
 - No template with G found
 - No template with I found
 - No template with J found
 - No template with B found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with C found
 - No template with B found
 - No template with C found
 - No template with B found
 - No template with C found
 - 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 3h0lA (8-486) 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:6f214dfc8f1dbf0393dd24e6aac8ea1a on BC2-cluster at Fri Feb 22 10:08:51
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.