SWISS-MODEL Repository - Model Details

Model Overview
Click on the bars to get more details about individual Models or experimental structures

Sequence
UniProt P10041
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
P10041: 7227.FBpp0083154

Domain
Link to: [ InterPro ]
EGF
EGF
EGF
EGF
EGF
EGF
DSL
EGF_CA
MNNL

Model 3D Structure
Model information:
Modelled residue range: 183 to 329
Based on template: [ 2vj2 ]  
Sequence Identity [%]: 53%
Model date: 2013-02-22
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (2vj2): MONOMER
Model built: SINGLE CHAIN

Ligand information: [details]
Ligands in the template: MLT: 1.
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       TCDLNYYG SGCAKFCRPR DDSFGHSTCS ETGEIICLTG WQGDYCHIPK
2vj2B     186     tcddyyyg fgcnkfcrpr ddffghyacd qngnktcmeg wmgpecnrai
                                                                      
TARGET                ssss s sssss  s ss  ssss        sss s ss     sss
2vj2B                 ssss s sssss  s ss  ssss        sss s ss     sss


TARGET    49    CAKGCE--HG HCDKPNQCVC QLGWKGALCN ECVLEPNCIH GTCNKPWTCI
2vj2B     234   crqgcspkhg scklpgdcrc qygwqglycd kciphpgcvh gicnepwqcl
                                                                      
TARGET                  ss s       ss s sss      sss      s ss       s
2vj2B                   ss s       ss s sss      sss      s ss       s


TARGET    97    CNEGWGGLYC NQDLNYCTNH RPCKNGGTCF NTGEGLYTCK CAPGYSGDDC
2vj2B     284   cetnwggqlc dkdlnycgth qpclnggtcs ntgpdkyqcs cpegysgpnc
                                                                      
TARGET          ss sss      sss hhhhh        sss ss   sssss           
2vj2B           ss sss      sss hhhhh        sss ss   sssss           


TARGET    147   E                                                     
2vj2B     334   ei                                                    
                                                                      
TARGET                                                                
2vj2B

Quality 


Template's ligands section 
Ligands in the template: MLT: 1. 
The template contains ligands that are not yet part of the pipeline. Ligands which are currently assessed are listed in the help page. 
No ligands were included in the model.

 
Quaternary Structure Annotation of the Template 
 2vj2 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: 2vj2.pdb2.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 The target and template sequences are too diverse (seqid: 53.691) 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:b3e984d4c399e9db113b0227208cf84a on BC2-cluster at Fri Feb 22 09:58:23
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...
 - Generate new template library
 - Run template selection against modfied template library 
 - Summarize templates: 
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with H found
 - No template with H found
 - No template with A found
 - No template with C found
 - No template with A found
 - No template with C found
 - No template with A found
 - No template with A found
 - No template with C found
 - No template with A found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with A found
 - No template with A found
 - No template with C found
 - No template with A found
 - No template with A found
 - No template with C found
 - No template with A found
 - No template with C found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - No template with A found
 - Warning: Oligomer Prediction was not successfull!

 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:13): model based on new templates
 - Send 13 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                   **************
 - building model based on 2vj2B (183-329) was successful 
 -                                             **********
 - building model based on 2ygqA (462-565) was successful 
 -                                         ***********
 - building model based on 2vj3A (419-530) was successful 
 -                                  ***********
 - building model based on 2ygqA (342-451) was successful 
 -                                      **********
 - building model based on 2vj3A (382-488) was successful 
 -                             ************
 - building model based on 2vj3A (290-419) was successful 
 -                                         ****************
 - building model based on 2gy5A (412-573) was successful 
 -                              ***************
 - building model based on 2gy5A (301-451) was successful 
 -                        ************
 - building model based on 3fcsD (244-373) was successful 
 -                     ***************
 - building model based on 3ijeB (213-373) was successful 
 -                 ***************************
 - building model based on 3ijeB (169-450) was not successful go to next best template
 -                 ***************************
 - building model based on 4g1mB (169-449) was not successful go to next best template
 -                        ************************
 - building model based on 4g1eB (244-489) was not successful go to next best template
 -                              **********************
 - building model based on 4g1eB (300-533) 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:b3e984d4c399e9db113b0227208cf84a on BC2-cluster at Fri Feb 22 10:07:04
2013


Template Description
Match Chain SeqId

3ije: CRYSTAL STRUCTURE OF THE COMPLETE INTEGRIN ALHAVBETA3 ECTODOMAIN PLUS AN ALPHA/BETA TRANSMEMBRANE FRAGMENT
Solved by: X-RAY, Resolution: 2.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

275-329 3ijeB 33%
[Model]
316-441 3ijeB 21%
[Model]
426-489 3ijeB 23%
[Model]
428-566 3ijeB 19%
[Model]
437-565 3ijeB 23%
[Model]
457-565 3ijeB 23%
[Model]
500-566 3ijeB 27%
[Model]
169-450 3ijeB 18%
[Model]
213-373 3ijeB 21%
[Model]
477-482 3ijeB 33%
[Model]
114-130 3ijeB 24%
[Model]
360-372 3ijeB 54%
[Model]

4g1m: RE-REFINEMENT OF ALPHA V BETA 3 STRUCTURE
Solved by: X-RAY, Resolution: 2.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

213-373 4g1mB 20%
[Model]
316-441 4g1mB 21%
[Model]
427-489 4g1mB 23%
[Model]
429-565 4g1mB 20%
[Model]
457-565 4g1mB 23%
[Model]
461-545 4g1mB 22%
[Model]
500-566 4g1mB 27%
[Model]
169-449 4g1mB 17%
[Model]
555-565 4g1mB 36%
[Model]
278-286 4g1mB 33%
[Model]
515-526 4g1mB 42%
[Model]
438-451 4g1mB 43%
[Model]

2npr: STRUCTURAL STUDIES ON PLASMODIUM VIVAX MEROZOITE SURFACE PROTEIN-1
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

299-368 2nprA 12%
[Model]
300-325 2nprA 27%
[Model]
422-488 2nprA 14%
[Model]
455-525 2nprA 15%
[Model]
493-565 2nprA 14%
[Model]
553-559 2nprA 29%
[Model]

3fcs: STRUCTURE OF COMPLETE ECTODOMAIN OF INTEGRIN AIIBB3
Solved by: X-RAY, Resolution: 2.55A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

213-329 3fcsB 28%
[Model]
276-372 3fcsB 22%
[Model]
298-373 3fcsB 22%
[Model]
402-450 3fcsB 22%
[Model]
403-564 3fcsB 21%
[Model]
427-489 3fcsB 23%
[Model]
437-568 3fcsB 24%
[Model]
426-565 3fcsB 19%
[Model]
456-566 3fcsB 24%
[Model]
499-527 3fcsB 28%
[Model]
213-330 3fcsD 27%
[Model]
275-373 3fcsD 23%
[Model]
402-463 3fcsD 26%
[Model]
403-539 3fcsD 22%
[Model]
427-501 3fcsD 26%
[Model]
437-568 3fcsD 24%
[Model]
459-565 3fcsD 23%
[Model]
500-527 3fcsD 29%
[Model]
173-192 3fcsB 30%
[Model]
169-192 3fcsD 25%
[Model]
25-37 3fcsD 8%
[Model]
25-37 3fcsB 8%
[Model]
402-416 3fcsB 27%
[Model]
244-373 3fcsD 21%
[Model]
402-417 3fcsD 29%
[Model]
318-330 3fcsD 46%
[Model]

1b9w: C-TERMINAL MEROZOITE SURFACE PROTEIN 1 FROM PLASMODIUM CYNOMOLGI
Solved by: X-RAY, Resolution: 1.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

300-365 1b9wA 14%
[Model]
423-483 1b9wA 14%
[Model]
456-520 1b9wA 17%
[Model]
493-565 1b9wA 16%
[Model]
299-322 1b9wA 21%
[Model]
215-223 1b9wA 22%
[Model]

4g1e: CRYSTAL STRUCTURE OF INTEGRIN ALPHA V BETA 3 WITH COIL-COI
Solved by: X-RAY, Resolution: 3.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

181-258 4g1eB 24%
[Model]
213-289 4g1eB 28%
[Model]
316-441 4g1eB 22%
[Model]
340-441 4g1eB 21%
[Model]
402-568 4g1eB 22%
[Model]
427-566 4g1eB 21%
[Model]
437-566 4g1eB 25%
[Model]
456-565 4g1eB 23%
[Model]
497-565 4g1eB 25%
[Model]
300-533 4g1eB 17%
[Model]
244-489 4g1eB 17%
[Model]
25-37 4g1eB 8%
[Model]

1n1i: THE STRUCTURE OF MSP-1(19) FROM PLASMODIUM KNOWLESI
Solved by: X-RAY, Resolution: 2.40A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

275-328 1n1iA 13%
[Model]
293-369 1n1iA 13%
[Model]
421-486 1n1iA 14%
[Model]
454-525 1n1iA 15%
[Model]
492-566 1n1iA 17%
[Model]
531-560 1n1iA 19%
[Model]
293-369 1n1iB 13%
[Model]
300-328 1n1iB 16%
[Model]
421-486 1n1iB 14%
[Model]
455-525 1n1iB 15%
[Model]
492-565 1n1iB 17%
[Model]
533-560 1n1iB 21%
[Model]
275-328 1n1iC 15%
[Model]
294-368 1n1iC 14%
[Model]
422-486 1n1iC 14%
[Model]
455-525 1n1iC 15%
[Model]
493-566 1n1iC 17%
[Model]
275-328 1n1iD 15%
[Model]
293-369 1n1iD 13%
[Model]
421-486 1n1iD 14%
[Model]
454-525 1n1iD 15%
[Model]
492-562 1n1iD 16%
[Model]
531-560 1n1iD 19%
[Model]

1m1x: CRYSTAL STRUCTURE OF THE EXTRACELLULAR SEGMENT OF INTEGRINALPHA VBETA3 BOUND TO MN2+
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

246-329 1m1xB 29%
[Model]
279-329 1m1xB 20%
[Model]
314-451 1m1xB 18%
[Model]
426-489 1m1xB 23%
[Model]
427-527 1m1xB 22%
[Model]
462-566 1m1xB 19%
[Model]
477-566 1m1xB 24%
[Model]
170-192 1m1xB 26%
[Model]
402-416 1m1xB 27%
[Model]

1jv2: CRYSTAL STRUCTURE OF THE EXTRACELLULAR SEGMENT OF INTEGRINALPHAVBETA3
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

246-329 1jv2B 29%
[Model]
279-329 1jv2B 20%
[Model]
314-451 1jv2B 18%
[Model]
426-489 1jv2B 23%
[Model]
427-527 1jv2B 22%
[Model]
462-566 1jv2B 19%
[Model]
477-566 1jv2B 24%
[Model]
170-192 1jv2B 26%
[Model]
402-416 1jv2B 27%
[Model]

1l5g: CRYSTAL STRUCTURE OF THE EXTRACELLULAR SEGMENT OF INTEGRINAVB3 IN COMPLEX WITH AN ARG-GLY-ASP LIGAND
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

246-329 1l5gB 29%
[Model]
279-329 1l5gB 20%
[Model]
314-451 1l5gB 18%
[Model]
426-489 1l5gB 23%
[Model]
427-527 1l5gB 22%
[Model]
462-566 1l5gB 19%
[Model]
477-566 1l5gB 24%
[Model]
170-192 1l5gB 26%
[Model]
402-416 1l5gB 27%
[Model]

1u8c: A NOVEL ADAPTATION OF THE INTEGRIN PSI DOMAIN REVEALED FROITS CRYSTAL STRUCTURE
Solved by: X-RAY, Resolution: 3.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

169-228 1u8cB 15%
[Model]
268-349 1u8cB 30%
[Model]
300-373 1u8cB 22%
[Model]
403-451 1u8cB 20%
[Model]
429-489 1u8cB 23%
[Model]
425-528 1u8cB 22%
[Model]
437-568 1u8cB 20%
[Model]
459-569 1u8cB 19%
[Model]
476-565 1u8cB 16%
[Model]
181-194 1u8cB 14%
[Model]
402-416 1u8cB 27%
[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.