SWISS-MODEL Repository - Model Details

Model Overview
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Sequence
UniProt Q9V9U4
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q9V9U4: 7227.FBpp0085222

Domain
Link to: [ InterPro ]
HEAT_PBS
HEAT_PBS
HEAT_PBS
HEAT_PBS
HEAT_PBS

Model 3D Structure
Model information:
Modelled residue range: 24 to 125
Based on template: [ 3ltj ]  
Sequence Identity [%]: 35%
Model date: 2015-02-11
Revision date: 2015-02-05

Quaternary structure information: [details]
Template (3ltj): 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 ]

Alignment

TARGET    1                                 RFRA LFTLKNIGGG AAIEAISKAF
3ltjA     12    hhhhtdpekv emyiknlqdd syyv--rraa ayalgkigde raveplikal
                                                                      
TARGET                                       hhh hhhhhhh       hhhhhh 
3ltjA                 hhhh hhhhhhh     hhh  hhhh hhhhhhh    hhhhhhhhhh


TARGET    25    DDDSALLKHE LAYCLGQMQD AQALDILTKV LKDTTQEPMV RHEAAEAMGA
3ltjA     60    kdedawvrra aadalgqigd eraveplika lkd--edgwv rqsaavalgq
                                                                      
TARGET              hhhhhh hhhhhhhh    hhhhhhhhh        hhh hhhhhhhhhh
3ltjA               hhhhhh hhhhhhhh    hhhhhhhhh h      hhh hhhhhhhhhh


TARGET    75    IGHP-DVLPI LEEYKQ-DPV VEVAETCAIA  --------- ----------
3ltjA     108   igderavepl ikalkdedwf vriaaafalg eigderavep likalkdedg
                                                                      
TARGET          h     hhhh hhhh     h hhhhhhhhhh                      
3ltjA           h      hhh hhh     hh hhhhhhhhhh hh      hh hhhhh    h


TARGET          ---------- ---------- ---------- ---------- -----     
3ltjA     158   wvrqsaadal geiggervra ameklaetgt gfarkvavny lethk     
                                                                      
TARGET                                                                
3ltjA           hhhhhhhhhh hh   hhhhh hhhhhhh     hhhhhhhhh hhh       



Quality


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


Quaternary Structure Annotation of the Template
3ltj is annotated as MONOMER
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: 3ltj.pdb1.gz

Quaternary Structure Modelling of the Target Protein
Analysis of evolutionary and family specific aspects revealed non-conservation of the oligomeric structure
Hence, the oligomeric structures of the target and the template cannot be assumed to be similar (=MONOMER)
The target structure was calculated as SINGLE CHAIN
The corresponding reliability score is 0.11 (>0.5 indicates similarity)


Template Selection
 - Start SMR-Pipeline for:d271eca168a25ec9c2c9c77892294cd6 on BC2-cluster at Wed Feb 11 21:44:41
2015 


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

 - No A3m found

 - Run HHSearch to detect more templates...
 - Generate new template library
 - Run template selection against modified template library 
 - Summarize templates: 
 - No template with A found
 - No template with A found
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:7): model based on new templates
 - Send 7 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -       ***************************
 - building model based on 3ltjA (24-125) was successful 
 -            ***********************************************
 - building model based on 3ltjA (40-217) was successful 
 -                                                   *************************
 - building model based on 4rzpA (190-282) was successful 
 -   ************************************************
 - building model based on 4rv1E (6-186) was successful 
 -  *****************************************************************
 - building model based on 4rzpA (5-251) was successful 
 -                                           *********************************
 - building model based on 4rzpA (159-282) was successful 
 -  **************************************************************************
 - building model based on 4rv1B (5-282) 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:d271eca168a25ec9c2c9c77892294cd6 on BC2-cluster at Wed Feb 11 21:48:08
2015 




Template Description
Match Chain SeqId

4rzp: CRYSTAL STRUCTURE OF ENGINEERED PROTEIN. NORTHEAST STRUCTUCONSORTIUM (NESG) TARGET OR366.
Solved by: X-RAY, Resolution: 2.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

70-282 4rzpA 14%
[Model]
70-282 4rzpB 14%
[Model]
5-251 4rzpA 15%
[Model]
5-251 4rzpB 15%
[Model]
39-259 4rzpA 13%
[Model]
39-259 4rzpB 13%
[Model]
159-282 4rzpA 15%
[Model]
159-282 4rzpB 15%
[Model]
6-129 4rzpA 19%
[Model]
6-129 4rzpB 19%
[Model]
190-282 4rzpA 17%
[Model]
190-282 4rzpB 17%
[Model]
70-98 4rzpA 24%
[Model]
70-98 4rzpB 24%
[Model]
4-128 4rzpA 19%
[Model]
4-128 4rzpB 19%
[Model]
191-217 4rzpA 15%
[Model]
191-217 4rzpB 15%
[Model]
103-130 4rzpA 18%
[Model]
103-130 4rzpB 18%
[Model]
191-282 4rzpA 18%
[Model]
191-282 4rzpB 18%
[Model]

4rv1: CRYSTAL STRUCTURE OF ENGINEERED PROTEIN. NORTHEAST STRUCTUCONSORTIUM (NESG) TARGET OR497.
Solved by: X-RAY, Resolution: 2.57A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

5-129 4rv1B 17%
[Model]
5-129 4rv1A 17%
[Model]
5-129 4rv1E 17%
[Model]
5-129 4rv1C 17%
[Model]
5-129 4rv1D 17%
[Model]
5-129 4rv1F 17%
[Model]
5-282 4rv1B 14%
[Model]
5-282 4rv1E 14%
[Model]
5-282 4rv1C 14%
[Model]
5-282 4rv1F 14%
[Model]
5-282 4rv1D 14%
[Model]
5-282 4rv1A 14%
[Model]
39-282 4rv1B 13%
[Model]
39-282 4rv1E 13%
[Model]
39-282 4rv1C 13%
[Model]
39-282 4rv1A 12%
[Model]
39-282 4rv1F 12%
[Model]
39-282 4rv1D 13%
[Model]
4-252 4rv1E 14%
[Model]
4-252 4rv1C 14%
[Model]
4-251 4rv1F 14%
[Model]
4-252 4rv1B 14%
[Model]
70-282 4rv1B 14%
[Model]
4-252 4rv1D 14%
[Model]
5-252 4rv1A 14%
[Model]
69-130 4rv1A 19%
[Model]
69-130 4rv1E 19%
[Model]
69-130 4rv1C 19%
[Model]
69-130 4rv1F 19%
[Model]
69-130 4rv1D 19%
[Model]
6-220 4rv1B 14%
[Model]
159-281 4rv1A 15%
[Model]
6-220 4rv1D 14%
[Model]
105-127 4rv1B 17%
[Model]
191-281 4rv1E 16%
[Model]
191-281 4rv1C 16%
[Model]
192-281 4rv1F 16%
[Model]
6-219 4rv1A 14%
[Model]
104-281 4rv1F 13%
[Model]
191-281 4rv1B 16%
[Model]
104-128 4rv1E 16%
[Model]
104-128 4rv1C 16%
[Model]
6-219 4rv1E 14%
[Model]
6-219 4rv1C 14%
[Model]
104-129 4rv1D 15%
[Model]
192-281 4rv1D 16%
[Model]
6-219 4rv1F 14%
[Model]
105-127 4rv1A 17%
[Model]
191-281 4rv1D 16%
[Model]
5-187 4rv1B 16%
[Model]
191-281 4rv1E 16%
[Model]
191-281 4rv1C 16%
[Model]
191-281 4rv1F 16%
[Model]
193-280 4rv1B 15%
[Model]
191-281 4rv1A 16%
[Model]
254-269 4rv1D 13%
[Model]
5-19 4rv1A 0%
[Model]
257-279 4rv1B 17%
[Model]
254-290 4rv1F 17%
[Model]
256-281 4rv1E 15%
[Model]
256-281 4rv1C 15%
[Model]
256-280 4rv1D 16%
[Model]
192-281 4rv1F 16%
[Model]
191-282 4rv1A 16%
[Model]
6-186 4rv1E 16%
[Model]
6-186 4rv1C 16%
[Model]
104-129 4rv1A 23%
[Model]
254-289 4rv1B 15%
[Model]
254-290 4rv1E 17%
[Model]
254-290 4rv1C 17%
[Model]
6-129 4rv1F 18%
[Model]
6-187 4rv1D 16%
[Model]
7-16 4rv1B 0%
[Model]
192-281 4rv1E 16%
[Model]
192-281 4rv1C 16%
[Model]
192-217 4rv1E 19%
[Model]
192-217 4rv1C 19%
[Model]
5-129 4rv1B 18%
[Model]
159-281 4rv1D 15%
[Model]
192-281 4rv1F 16%
[Model]
40-127 4rv1A 20%
[Model]
5-129 4rv1F 18%
[Model]
6-128 4rv1E 18%
[Model]
6-128 4rv1C 18%
[Model]
192-281 4rv1B 16%
[Model]
195-217 4rv1A 17%
[Model]
7-16 4rv1D 0%
[Model]
5-19 4rv1F 0%
[Model]
255-269 4rv1A 13%
[Model]
42-63 4rv1D 18%
[Model]

4hxt: CRYSTAL STRUCTURE OF ENGINEERED PROTEIN. NORTHEAST STRUCTUCONSORTIUM TARGET OR329
Solved by: X-RAY, Resolution: 1.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

104-129 4hxtA 15%
[Model]
158-282 4hxtA 15%
[Model]
191-217 4hxtA 15%
[Model]
189-282 4hxtA 16%
[Model]
191-282 4hxtA 16%
[Model]
39-250 4hxtA 13%
[Model]
37-251 4hxtA 15%
[Model]
4-129 4hxtA 18%
[Model]
4-129 4hxtA 17%
[Model]
5-284 4hxtA 13%
[Model]
69-99 4hxtA 26%
[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.