SWISS-MODEL Repository

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

Quaternary Structure Annotation of the Template 
 3qit is annotated as DIMER 
 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: 3qit.pdb1.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 The target and template sequences are too diverse (seqid: 15.916) 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 
 To build the complex the following chains of the complex has been additionally identified: 3qitA 

 - Start SMR-Pipeline for:f8be5ab9e409b0c62eae8b3615d6b166 on BC2-cluster at Thu Feb 21 16:56:28
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 md5 found in hash for: 4ihaB
FATAL - No md5 found in hash for: 4ihaB
FATAL - No md5 found in hash for: 4ihaA
FATAL - No md5 found in hash for: 4ih9B
FATAL - No md5 found in hash for: 4ih9A
FATAL - No md5 found in hash for: 3w04A
FATAL - No md5 found in hash for: 3w05A
FATAL - No md5 found in hash for: 3w05B
FATAL - No md5 found in hash for: 3w04B
FATAL - No md5 found in hash for: 4ih4C
FATAL - No md5 found in hash for: 4ih4B
FATAL - No md5 found in hash for: 4ih4A
FATAL - No md5 found in hash for: 4ih4D
 - Generate new template library
 - Run template selection against modfied template library 
 - Summarize templates: 
 - 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 1k8qB (65-415) was not successful go to next best template
 -             ****************************************************************
 - building model based on 1k8qA (65-415) was not successful go to next best template
 -             ****************************************************************
 - building model based on 1hlgB (65-416) was not successful go to next best template
 -             ****************************************************************
 - building model based on 1hlgA (65-416) was not successful go to next best template
 -               *************************************************************
 - building model based on 3qitB (79-411) 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:f8be5ab9e409b0c62eae8b3615d6b166 on BC2-cluster at Thu Feb 21 17:01:24
2013