SWISS-MODEL Repository - Model Details

Model Overview
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1
589

Sequence
UniProt O31952
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain
Link to: [ InterPro ]
Terminase_6

Model 3D Structure
Model information:
Modelled residue range: 59 to 134
Based on template: [ 3dkp ]  
Sequence Identity [%]: 21%
Model date: 2010-05-21
Revision date: 2011-04-14

Quaternary structure information: [details]
NA

Ligand information: [details]
NA
Template Links: [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  
display model: in [ AstexViewer ]
download model: as [ pdb ] - as [ Deepview project ]

This model has not been updated since 2011-04-14. 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    59                                                        LG
3dkpA     137   smkinflrnk hkihvqgtdl pdpiatfqql dqeykinsrl lqnild--ag
                                                                      
TARGET                                                                
3dkpA            hhhhhhhhh hsssss            hhh hhh    hhh hhhhhh    


TARGET    61    I-TLKLFQCI LIYMMVHNHY FMYLASRGQG KTWLTSVYCC VQAILFP--G
3dkpA     185   fqmptpiqmq aipvmlhgre llasaptgsg ktlafsipil mqlkqpankg
                                                                      
TARGET                 hhh hhhhhh                 hhhhhhhhh hhh       
3dkpA                hhhhh hhhhhh   s sssss      hhhhhhhhhh hhh       


TARGET    108   TKIVIASGTK GQAREVIEKI DDLRKES -- ---------- ----------
3dkpA     235   fraliisptr elasqihrel ikisegtgfr ihmihkaava akkfgpkssk
                                                                      
TARGET                   h hhhhhhhhhh hhhh                            
3dkpA             sssss  h hhhhhhhhhh hhhh     s ss   hhhhh h         


TARGET          ---------- ---------- ---------- ---------- ----------
3dkpA     285   kfdilvttpn rliyllkqdp pgidlasvew lvvdesdklf edggfrdqla
                                                                      
TARGET                                                                
3dkpA              ssss hh hhhhhhh            ss ssssshhh       hhhhhh


TARGET          ---------- ---------- ---------- ---------- --        
3dkpA     337   siflactshk vrramfsatf aydveqwckl nldnvisvsi ga        
                                                                      
TARGET                                                                
3dkpA           hhhhh       ssssss        hhhhhh h    sssss s         



Quality


no data available!


no data available!


Template Selection
 - Start SMR-Pipeline for:9e94621ad28ddb03535f65d91f7fd50b on BC2-cluster at Thu Apr 14 22:12:19
2011 


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

 - Run HHSearch to detect more templates...
 - Proof template(s) selection compared to previous Repository update
 - Selected template(s): no changes compared to previous version of the Repository:
 -  Template: 3dkpA (59-134) Sequence Identity: 21.519
 -  Template: 2zj8A (60-190) Sequence Identity: 18.182
 -  Template: 3cpeA (5-568) Sequence Identity: 11.897
 - 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:9e94621ad28ddb03535f65d91f7fd50b on BC2-cluster at Thu Apr 14 22:12:31
2011 




Template Description
Match Chain SeqId

3dkp:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-134 3dkpA 22%
[Model]

3oiy:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

54-132 3oiyA 22%
[Model]

2oxc:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-133 2oxcB 21%
[Model]

2hyi:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

60-131 2hyiC 19%
[Model]

3ly5:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-132 3ly5B 19%
[Model]

2zj8:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

60-190 2zj8A 18%
[Model]

2p6r:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

53-189 2p6rA 17%
[Model]

1xtk:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-133 1xtkA 16%
[Model]

1vec:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-132 1vecA 16%
[Model]

1gl9:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

54-134 1gl9B 16%
[Model]

3pey:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-134 3peyA 15%
[Model]

2fwr:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

60-195 2fwrA 15%
[Model]

1wrb:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

60-132 1wrbB 15%
[Model]
60-133 1wrbA 15%
[Model]

3gp8:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

52-200 3gp8A 14%
[Model]

2xzl:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

62-129 2xzlA 13%
[Model]

2xgj:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-196 2xgjA 13%
[Model]

2va8:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-189 2va8B 13%
[Model]

3b85:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

63-196 3b85B 13%
[Model]
63-198 3b85A 13%
[Model]
63-196 3b85B 13%
[Model]
63-198 3b85A 13%
[Model]
63-196 3b85B 13%
[Model]

3mwj:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

59-131 3mwjB 13%
[Model]

2oca:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

60-198 2ocaA 12%
[Model]

3k70:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

56-213 3k70D 12%
[Model]

3cpe:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

5-568 3cpeA 12%
[Model]

3b6e:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

61-131 3b6eA 11%
[Model]

3c6a:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

330-568 3c6aA 10%
[Model]

2zpa:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

63-233 2zpaB 10%
[Model]

2wwy:
Not available
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

54-129 2wwyA 8%
[Model]

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.