SWISS-MODEL Repository - Model Details

Model Overview
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1
417

Sequence
UniProt Q3TNH5
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain
Link to: [ InterPro ]
Arb2

Model 3D Structure
Model information:
Modelled residue range: 268 to 325
Based on template: [ 4rpc ]  
Sequence Identity [%]: 20%
Model date: 2015-04-01
Revision date: 2015-03-23

Quaternary structure information: [details]
Template (4rpc): 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

                                                       
4rpcB     9     klhrxgephg pkvllihgag fywqtcfari irdlkdrycl lipeleghta
                                                                      
                                                       
4rpcB           sssssss    ssssss       hhh   hh hh     sss ssss      


TARGET    1             PE EHAVYVWDHF IAQAAAENVF FVAHSYGGLA FVELMIQREA
4rpcB     59    hpreyxvsve etagklgeal eelrvdkvqa iygvslgasv avexairge-
                                                                      
TARGET                   h hhhhhhhhhh hhh  sssss sssss hhhh hhhhhh    
4rpcB                   hh hhhhhhhhhh hhh  sssss sssss hhhh hhhhhh    


TARGET    43    DVKSKVTAVA LTDSVH --- ---------- ---------- ----------
4rpcB     108   ---ikvxnll ldggqyegxg exteqyanix adaflnllag ehlpspvken
                                                                      
TARGET              ssssss ss                                         
4rpcB               ssssss ss          hhhhhhhhh hhhhhhhhh        hhhh


TARGET          ---------- ---------- ---------- ---------- ----------
4rpcB     156   xgfaanndve vlqpliyehi treallhall aayrydlkak narvdarvsv
                                                                      
TARGET                                                                
4rpcB           h      hhh hhhhh       hhhhhhhhh hhhh   hh        ssss


TARGET          ---------- ---------- ---------- ---------- ----------
4rpcB     205   liggneiyga qftpllaeis rhpldiyefp nrghaevlsk epekisrlir
                                                                      
TARGET                                                                
4rpcB           ssss     h    hhhhhh      sssss       hhhh    hhhhhhhh


TARGET          ----                                                  
4rpcB     255   eiln                                                  
                                                                      
TARGET                                                                
4rpcB           hh                                                    



Quality


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


Quaternary Structure Annotation of the Template
4rpc 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: 4rpc.pdb2.gz

Quaternary Structure Modelling of the Target Protein
The target and template sequences are too diverse (seqid: 20.690) 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


Template Selection
 - Start SMR-Pipeline for:d977c764758a1ff5036bb689847dc536 on BC2-cluster at Wed Apr  1 00:21:53
2015 


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

 - 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 B found
 - Warning: Oligomer Prediction was not successfull!

 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:3): model based on new templates
 - Send 3 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                    ***********
 - building model based on 4rpcB (268-325) was successful 
 -                             **********************************
 - building model based on 3wwpR (148-325) was successful 
 -                        *****************************************
 - building model based on 3qitD (118-329) 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:d977c764758a1ff5036bb689847dc536 on BC2-cluster at Wed Apr  1 00:23:10
2015 




Template Description
Match Chain SeqId

4rpc: CRYSTAL STRUCTURE OF THE PUTATIVE ALPHA/BETA HYDROLASE FAMFROM DESULFITOBACTERIUM HAFNIENSE
Solved by: X-RAY, Resolution: 2.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

268-325 4rpcA 21%
[Model]
268-325 4rpcB 21%
[Model]

3wwo: S-SELECTIVE HYDROXYNITRILE LYASE FROM BALIOSPERMUM MONTANU
Solved by: X-RAY, Resolution: 2.55A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

267-325 3wwoB 17%
[Model]
268-325 3wwoA 17%
[Model]

3wwp: S-SELECTIVE HYDROXYNITRILE LYASE FROM BALIOSPERMUM MONTANU
Solved by: X-RAY, Resolution: 1.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

148-325 3wwpA 11%
[Model]
148-325 3wwpB 11%
[Model]
266-325 3wwpL 18%
[Model]
266-325 3wwpG 18%
[Model]
148-325 3wwpM 11%
[Model]
148-325 3wwpR 11%
[Model]

3qit: THIOESTERASE DOMAIN FROM CURACIN BIOSYNTHETIC PATHWAY
Solved by: X-RAY, Resolution: 1.68A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

118-328 3qitA 9%
[Model]
267-330 3qitB 16%
[Model]
118-329 3qitC 8%
[Model]
118-329 3qitD 9%
[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.




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