SWISS-MODEL Repository - Model Details

Model Overview
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Sequence
UniProt Q9TW65
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q9TW65: 6239.F15D3.1a

Domain
Link to: [ InterPro ]
CH
Spectrin
Spectrin
Spectrin
ZZ
efhand_1
efhand_2

Model 3D Structure
Model information:
Modelled residue range: 3039 to 3299
Based on template: [ 1eg3 ]  
Sequence Identity [%]: 46%
Model date: 2013-02-21
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (1eg3): 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 ]

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     PTSEHFLNQS VTLPWQRAIS KSNLLPYYIE QTSEKTQWEH PVWVEIVKEL
1eg3A     47    pasqhflsts vqgpwerais -pnkvpyyin hetqttcwdh pkmtelyqsl
                                                                      
TARGET            hhh   h     sssssss     ssssss s  ssss    hhhhhhhhhh
1eg3A             hhh   h     sssssss     ssssss s   sss    hhhhhhhhhh


TARGET    51    SQFNRVKFLA YRTAMKLRAL QKRLCLDLVD LTLLEKAFVR LKGLSAEECP
1eg3A     96    adlnnvrfsa yrtamklrrl qkalcldlls lsaacdaldq hnlkqndqpm
                                                                      
TARGET             h    hh hhhhhhhhhh hhhh       hhhhhhhhhh h      sss
1eg3A              h    hh hhhhhhhhhh hhhh       hhhhhhhhhh h      sss


TARGET    101   GLEGMVCALL PMYEALHAKY PNQVQSVSLA VDICINFLLN LFDQSRDGIM
1eg3A     146   dilqiinclt tiydrleqeh nnlv-nvplc vdmclnwlln vydtgrtgri
                                                                      
TARGET           hhhhhhhhh hhhhhhhhh         hhh hhhhhhhhhh h        s
1eg3A           sshhhhhhhh hhhhhhhhh        hhhh hhhhhhhhhh h      sss


TARGET    151   RVLSFKIAMI VFSNIPLEEK YRYLF-KLVS QDGHATQKQI ALLLYDLIHI
1eg3A     195   rvlsfktgii slckahledk yrylfkqvas stgfcdqrrl glllhdsiqi
                                                                      
TARGET          sshhhhhhhh hh    hhhh hhhh             hhhh hhhhhhhhhh
1eg3A           sshhhhhhhh hh    hhhh hhhhhhhh         hhhh hhhhhhhhhh


TARGET    200   PRLVGESAAF GGTNVEPSVR SCFETVRLAP TISEGAFIDW VKKEPQSIVW
1eg3A     245   prqlgevasf ggsniepsvr scfqfannkp eieaalfldw mrlepqsmvw
                                                                      
TARGET          hhh             hhhhh hhhhh         hhhhhhh          h
1eg3A           hhh             hhhhh hhhhhh        hhhhhhh hh       h


TARGET    250   LAVMHRLVIS ES                                         
1eg3A     295   lpvlhrvaaa et-                                        
                                                                      
TARGET          hhhhhhhhhh                                            
1eg3A           hhhhhhhhhh

Quality 


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

 
Quaternary Structure Annotation of the Template 
 1eg3 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: 1eg3.pdb1.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 The target and template sequences are too diverse (seqid: 46.565) 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:f49dad29efc60f6972e5282936663179 on BC2-cluster at Thu Feb 21 03:36:58
2013 


 - 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 modfied template library 
 - Summarize templates: 
 - No template with P found
 - No template with B found
 - No template with D found
 - No template with C found
 - Warning: Oligomer Prediction was not successfull!

 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:6): model based on new templates
 - Send 6 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                                   ******
 - building model based on 1eg3A (3039-3299) was successful 
 -                                                                         *
 - building model based on 2e5rA (3297-3352) was successful 
 -        **
 - building model based on 3uulB (329-442) was successful 
 -    **
 - building model based on 1aa2A (133-230) was successful 
 -   ***
 - building model based on 2r0oA (96-232) was successful 
 -  *****
 - building model based on 3f7pB (24-233) 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:f49dad29efc60f6972e5282936663179 on BC2-cluster at Thu Feb 21 03:42:37
2013


Template Description
Match Chain SeqId

1wr3: SOLUTION STRUCTURE OF THE FIRST WW DOMAIN OF NEDD4-2
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3051-3081 1wr3A 23%
[Model]

1wr4: SOLUTION STRUCTURE OF THE SECOND WW DOMAIN OF NEDD4-2
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3047-3081 1wr4A 17%
[Model]

1wjo: SOLUTION STRUCTURE OF THE FORTH CH DOMAIN FROM HUMAN PLASTIN 3 T-ISOFORM
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

131-232 1wjoA 14%
[Model]
30-119 1wjoA 14%
[Model]

2d85: SOLUTION STRUCTURE OF THE FOURTH CH DOMAIN FROM HUMAN L- PLASTIN
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

131-238 2d85A 14%
[Model]
29-116 2d85A 11%
[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.