SWISS-MODEL Repository - Model Details

Model Overview
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Sequence
UniProt Q95Q95
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain
Link to: [ InterPro ]
PI3_PI4_kinase
FAT
FATC
Rapamycin_bind
DUF3385

Model 3D Structure
Model information:
Modelled residue range: 2189 to 2287
Based on template: [ 1fap ]  
Sequence Identity [%]: 48%
Model date: 2013-02-20
Revision date: 2013-01-30

Quaternary structure information: [details]
Template (1fap): HETERO DIMER
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       RCAILWHE QWHDALDDAS RVYFHRRLQD NNVQAMFDAL RNMNDLMQKG
1fapB     2018    rvailwhe mwhegleeas rlyfger--- -nvkgmfevl eplhammerg
                                                                      
TARGET                 hhh hhhhhhhhhh hhhh         hhhhh    hhhhhhhh  
1fapB                  hhh hhhhhhhhhh hhhh         hhhhh    hhhhhhhhh 


TARGET    49    APTTMKEHSF QQTYSSDLKE AGRYVQAFES SGNVKDLNQA WEIYCSVFKK
1fapB     2062  -pqtlketsf nqaygrdlme aqewcrkymk sgnvkdltqa wdlyyhvfrr
                                                                      
TARGET              hhhhhh hh   hhhhh hhhhhhhhhh     hhhhhh hhhhhhhhhh
1fapB               hhhhhh hh   hhhhh hhhhhhhhhh      hhhhh hhhhhhhhhh


TARGET    99    L                                                     
1fapB     2111  is                                                    
                                                                      
TARGET                                                                
1fapB                                                                 



Quality


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


Quaternary Structure Annotation of the Template
1fap is annotated as HETERO DIMER
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: 1fap.pdb1.gz

Quaternary Structure Modelling of the Target Protein
1fap_1


Template Selection
 - Start SMR-Pipeline for:3be492797e171a4bfe7a8aeb7d5c7dec on BC2-cluster at Wed Feb 20 22:38:39
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 A found
 - No template with B found
 - No template with A found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with C found
 - No template with B 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:22): model based on new templates
 - Send 22 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                                  ***
 - building model based on 1fapB (2189-2287) was successful 
 -                                                                          **
 - building model based on 4fhjA (2474-2557) was successful 
 -                                                                      *******
 - building model based on 2y3aA (2322-2565) was successful 
 -                         *
 - building model based on 4b8pB (820-848) was successful 
 -                      *
 - building model based on 4hxtA (695-722) was successful 
 -                           *
 - building model based on 4hxtA (866-892) was successful 
 -                                              *
 - building model based on 3vtyA (1516-1542) was successful 
 -                         **
 - building model based on 4hxtA (822-891) was successful 
 -                       ****
 - building model based on 4hxtA (746-892) was successful 
 -                                            *
 - building model based on 3vtyA (1439-1464) was successful 
 -                                                  *
 - building model based on 3vtxB (1645-1670) was successful 
 -                                                          *
 - building model based on 3vtyD (1907-1932) was successful 
 -                      ******
 - building model based on 4hxtA (694-895) was successful 
 -                                                     **
 - building model based on 3vtxB (1752-1821) was successful 
 -                    *******
 - building model based on 4hxtA (656-892) was successful 
 -       *
 - building model based on 4hxtA (217-265) was successful 
 -                   *******
 - building model based on 4hxtA (606-850) was successful 
 -                   *********
 - building model based on 4b8jA (608-897) was successful 
 -                   ************
 - building model based on 4b8pB (607-1001) was successful 
 -                                  **
 - building model based on 4b8pB (1118-1184) was successful 
 -                                            ***
 - building model based on 3vtyD (1438-1540) was successful 
 -                                             ******
 - building model based on 3vtyD (1484-1671) 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:3be492797e171a4bfe7a8aeb7d5c7dec on BC2-cluster at Wed Feb 20 22:47:09
2013 




Template Description
Match Chain SeqId

4b8j: RIMP_ALPHA1A
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

1119-1183 4b8jA 13%
[Model]
663-895 4b8jA 12%
[Model]
694-892 4b8jA 12%
[Model]
793-890 4b8jA 14%
[Model]
608-897 4b8jA 13%
[Model]
608-629 4b8jA 9%
[Model]
702-721 4b8jA 10%
[Model]
840-846 4b8jA 29%
[Model]
702-724 4b8jA 17%
[Model]
164-169 4b8jA 50%
[Model]

4b8p: RIMP_ALPHA_A89NLS
Solved by: X-RAY, Resolution: 2.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

1118-1184 4b8pA 12%
[Model]
607-1001 4b8pA 13%
[Model]
693-726 4b8pA 9%
[Model]
697-893 4b8pA 12%
[Model]
707-891 4b8pA 12%
[Model]
822-848 4b8pA 11%
[Model]
820-848 4b8pA 24%
[Model]
693-726 4b8pB 9%
[Model]
697-893 4b8pB 12%
[Model]
707-891 4b8pB 12%
[Model]
822-848 4b8pB 11%
[Model]
607-1001 4b8pB 13%
[Model]
705-726 4b8pB 14%
[Model]
705-726 4b8pA 14%
[Model]
610-625 4b8pB 13%
[Model]
610-625 4b8pA 13%
[Model]
1118-1184 4b8pB 12%
[Model]
840-847 4b8pB 38%
[Model]
840-847 4b8pA 38%
[Model]
820-848 4b8pB 24%
[Model]
880-888 4b8pB 33%
[Model]
880-888 4b8pA 33%
[Model]

3vtx: CRYSTAL STRUCTURE OF MAMA PROTEIN
Solved by: X-RAY, Resolution: 1.75A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

1438-1541 3vtxA 9%
[Model]
1481-1542 3vtxA 8%
[Model]
1438-1540 3vtxB 9%
[Model]
1519-1541 3vtxA 17%
[Model]
1519-1541 3vtxB 17%
[Model]
1482-1504 3vtxB 4%
[Model]
1645-1670 3vtxB 15%
[Model]
1752-1821 3vtxB 14%
[Model]
1755-1779 3vtxA 12%
[Model]
1650-1668 3vtxA 11%
[Model]
1909-1919 3vtxA 18%
[Model]
1908-1930 3vtxB 17%
[Model]
1911-1919 3vtxB 11%
[Model]
1909-1927 3vtxA 16%
[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 ]  

607-808 4hxtA 13%
[Model]
691-764 4hxtA 14%
[Model]
792-893 4hxtA 16%
[Model]
606-850 4hxtA 14%
[Model]
656-892 4hxtA 14%
[Model]
694-895 4hxtA 15%
[Model]
822-891 4hxtA 17%
[Model]
746-892 4hxtA 16%
[Model]
695-722 4hxtA 21%
[Model]
866-892 4hxtA 19%
[Model]
1139-1144 4hxtA 17%
[Model]
608-629 4hxtA 18%
[Model]
241-265 4hxtA 12%
[Model]
217-265 4hxtA 14%
[Model]

4b8o: RIMP_ALPHA_SV40TAGNLS
Solved by: X-RAY, Resolution: 2.08A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

220-263 4b8oA 11%
[Model]
606-1003 4b8oA 12%
[Model]
664-891 4b8oA 11%
[Model]
695-892 4b8oA 12%
[Model]
746-890 4b8oA 16%
[Model]
820-889 4b8oA 13%
[Model]
820-892 4b8oA 15%
[Model]
864-891 4b8oA 14%
[Model]
157-172 4b8oA 19%
[Model]
708-730 4b8oA 4%
[Model]
706-719 4b8oA 0%
[Model]
702-726 4b8oA 12%
[Model]
157-170 4b8oA 14%
[Model]

2yns: RIMP_ALPHA_B54NLS
Solved by: X-RAY, Resolution: 2.08A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

220-263 2ynsA 11%
[Model]
606-1003 2ynsA 12%
[Model]
664-891 2ynsA 11%
[Model]
695-892 2ynsA 12%
[Model]
746-890 2ynsA 16%
[Model]
820-889 2ynsA 13%
[Model]
820-892 2ynsA 15%
[Model]
864-891 2ynsA 14%
[Model]
220-263 2ynsB 11%
[Model]
606-1003 2ynsB 12%
[Model]
664-891 2ynsB 11%
[Model]
695-892 2ynsB 12%
[Model]
746-890 2ynsB 16%
[Model]
820-889 2ynsB 13%
[Model]
820-892 2ynsB 15%
[Model]
864-891 2ynsB 14%
[Model]
157-172 2ynsB 19%
[Model]
157-172 2ynsA 19%
[Model]
708-730 2ynsB 4%
[Model]
708-730 2ynsA 4%
[Model]
706-719 2ynsB 0%
[Model]
706-719 2ynsA 0%
[Model]
702-726 2ynsB 12%
[Model]
702-726 2ynsA 12%
[Model]
157-170 2ynsB 14%
[Model]
157-170 2ynsA 14%
[Model]

3vty: CRYSTAL STRUCTURE OF MAMA
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

1439-1464 3vtyB 15%
[Model]
1516-1542 3vtyB 19%
[Model]
1438-1539 3vtyC 9%
[Model]
1481-1671 3vtyC 5%
[Model]
1753-1822 3vtyC 14%
[Model]
1517-1542 3vtyD 15%
[Model]
1755-1823 3vtyD 14%
[Model]
1438-1540 3vtyD 9%
[Model]
1647-1670 3vtyA 8%
[Model]
1647-1670 3vtyB 8%
[Model]
1519-1541 3vtyC 17%
[Model]
1439-1464 3vtyA 15%
[Model]
1484-1671 3vtyD 6%
[Model]
1516-1542 3vtyA 19%
[Model]
1485-1503 3vtyA 5%
[Model]
1485-1503 3vtyB 5%
[Model]
1755-1778 3vtyA 8%
[Model]
1755-1778 3vtyB 8%
[Model]
1913-1925 3vtyA 15%
[Model]
1913-1925 3vtyB 15%
[Model]
1909-1918 3vtyD 20%
[Model]
1649-1670 3vtyA 14%
[Model]
1649-1670 3vtyB 14%
[Model]
1523-1532 3vtyD 50%
[Model]
1907-1932 3vtyD 15%
[Model]
1649-1669 3vtyC 14%
[Model]
1654-1663 3vtyC 10%
[Model]
1573-1587 3vtyD 13%
[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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