SWISS-MODEL Repository - Model Details

Model Overview
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1
1122

Sequence
UniProt Q02858
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain
Link to: [ InterPro ]
fn3
fn3
fn3
Pkinase_Tyr
Ig_Tie2_1
Ig_2

Model 3D Structure
Model information:
Modelled residue range: 811 to 1119
Based on template: [ 1fvr ]  
Sequence Identity [%]: 96%
Model date: 2013-05-08
Revision date: 2013-04-01

Quaternary structure information: [details]
Template (1fvr): 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     PTIYPVLDWN DIKFQDVIGE GNFGQVLKAR IKKDGLRMDA AIKRMKEYAS
1fvrB     813   ptiypvldwn dikfqdvige gnfgqvlkar ikkdglrmda aikrmkey--
                                                                      
TARGET                       ssssssss    sssssss sss  sssss sssssss   
1fvrB                        ssssssss    sssssss sss  sssss sssssss   


TARGET    51    KDDHRDFAGE LEVLCKLGHH PNIINLLGAC EHRGYLYLAI EYAPHGNLLD
1fvrB     867   ----rdfage levlcklghh pniinllgac ehrgylylai eyaphgnlld
                                                                      
TARGET               hhhhh hhhhhh         ssssss ss sssssss s    ssshh
1fvrB                 hhhh hhhhhh         ssssss ss sssssss s    ssshh


TARGET    101   FLRKSRVLET DPAFAIANST ASTLSSQQLL HFAADVARGM DYLSQKQFIH
1fvrB     913   flrksrvlet dpafaianst astlssqqll hfaadvargm dylsqkqfih
                                                                      
TARGET          hhhh   hh    hhhhh ss s    hhhhh hhhhhhhhhh hhhh  sss 
1fvrB           hhhh   hh    hhhhhhss s    hhhhh hhhhhhhhhh hhhh  sss 


TARGET    151   RDLAARNILV GENYIAKIAD FGLSRGQEVY VKKTMGRLPV RWMAIESLNY
1fvrB     963   rdlaarnilv genyvakiad fglsrgqevy vkk---rlpv rwmaieslny
                                                                      
TARGET                ssss s   sssss     sss  ss s              hhhhh 
1fvrB                 ssss s   sssss     sss  ss s              hhhhh 


TARGET    201   SVYTTNSDVW SYGVLLWEIV SLGGTPYCGM TCAELYEKLP QGYRLEKPLN
1fvrB     1013  svyttnsdvw sygvllweiv slggtpycgm tcaelyeklp qgyrlekpln
                                                                      
TARGET          sss hhhhhh hhhhhhhhhh h           hhhhhhhhh          s
1fvrB           sss hhhhhh hhhhhhhhhh h           hhhhhhhhh          s


TARGET    251   CDDEVYDLMR QCWREKPYER PSFAQILVSL NRMLEERKTY VNTTLYEKFT
1fvrB     1063  cddevydlmr qcwrekpyer psfaqilvsl nrmleerkty vnttlyekft
                                                                      
TARGET          sshhhhhhhh hh           hhhhhhhh hhhh     s sssss     
1fvrB           sshhhhhhhh h            hhhhhhhh hhhh     s sssss     


TARGET    301   YAGIDCSAE                                             
1fvrB     1113  yagidcsae-                                            
                                                                      
TARGET                                                                
1fvrB

Quality 


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

 
Quaternary Structure Annotation of the Template 
 1fvr 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: 1fvr.pdb2.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 0.25 (>0.5 indicates similarity)

Template Selection 
 - Start SMR-Pipeline for:763ce0b761ec51d5fae2f476b74ced1a on BC2-cluster at Wed May  8 01:35:46
2013 


 - Analyze BLAST summary ... 
 - Blast template search was successfull, number of templates selected for modeling:  2
 - But still uncovered regions of the target sequence detected, go for: HHSEARCH

 - Warning: sequence length exceeded the limit of 1000 residues
 - HHsearch profile build is skipped
 - No template with A found
 - Send 2 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                           **********************
 - building model based on 1fvrB (811-1119) was successful 
 -   ******************************
 - building model based on 2gy5A (23-445) 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:763ce0b761ec51d5fae2f476b74ced1a on BC2-cluster at Wed May  8 01:38:04
2013


Template Description
Match Chain SeqId

1fvr: TIE2 KINASE DOMAIN
Solved by: X-RAY, Resolution: 2.20A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

811-1119 1fvrA 96%
[Model]
811-1119 1fvrB 97%
[Model]

2wqb: STRUCTURE OF THE TIE2 KINASE DOMAIN IN COMPLEX WITH A THIAZOLOPYRIMIDINE INHIBITOR
Solved by: X-RAY, Resolution: 2.95A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

814-1118 2wqbA 94%
[Model]

3l8p: CRYSTAL STRUCTURE OF CYTOPLASMIC KINASE DOMAIN OF TIE2 COMINHIBITOR CEP11207
Solved by: X-RAY, Resolution: 2.40A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

812-1119 3l8pA 94%
[Model]

2gy5: TIE2 LIGAND-BINDING DOMAIN CRYSTAL STRUCTURE
Solved by: X-RAY, Resolution: 2.90A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

23-445 2gy5A 92%
[Model]

2gy7: ANGIOPOIETIN-2/TIE2 COMPLEX CRYSTAL STRUCTURE
Solved by: X-RAY, Resolution: 3.70A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

23-445 2gy7B 92%
[Model]

2oo8: SYNTHESIS, STRUCTURAL ANALYSIS, AND SAR STUDIES OF TRIAZINDERIVATIVES AS POTENT, SELECTIVE TIE-2 INHIBITORS
Solved by: X-RAY, Resolution: 2.20A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

834-1115 2oo8X 91%
[Model]

2osc: SYNTHESIS, STRUCTURAL ANALYSIS, AND SAR STUDIES OF TRIAZINDERIVATIVES AS POTENT, SELECTIVE TIE-2 INHIBITORS
Solved by: X-RAY, Resolution: 2.80A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

835-1114 2oscA 91%
[Model]

2p4i: EVOLUTION OF A HIGHLY SELECTIVE AND POTENT 2-(PYRIDIN-2-YL1,3,5-TRIAZINE TIE-2 KINASE INHIBITOR
Solved by: X-RAY, Resolution: 2.50A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

836-1115 2p4iA 90%
[Model]
834-1115 2p4iB 91%
[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.