SWISS-MODEL Repository - Model Details

Model Overview
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1
236

Sequence
UniProt P10417
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain
Link to: [ InterPro ]
Bcl-2
BH4

Model 3D Structure
Model information:
Modelled residue range: 89 to 203
Based on template: [ 2xa0 ]  
Sequence Identity [%]: 99%
Model date: 2013-05-04
Revision date: 2013-04-01

Quaternary structure information: [details]
Template (2xa0): 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 ]

Alignment 

TARGET    1                               VVHLTL RRAGDDFSRR YRRDFAEMSS
2xa0A     10    dnreivmkyi hyklsqrgye wd--vvhltl rqagddfsrr yrrdfaemss
                                                                      
TARGET                                     hhhhh hhhhhhhhhh hhhh    hh
2xa0A            hhhhhhhhh hhhhh           hhhhh hhhhhhhhhh    h    hh


TARGET    27    QLHLTPFTAR GRFATVVEEL FRDGVNWGRI VAFFEFGGVM CVESVNREMS
2xa0A     118   qlhltpftar grfatvveel frdgvnwgri vaffefggvm cvesvnrems
                                                                      
TARGET          h       hh hhhhhhhhh        hhhh hhhhhhhhhh hhhhhhh   
2xa0A           h       hh hhhhhhhhhh h     hhhh hhhhhhhhhh hhhhhhh   


TARGET    77    PLVDNIALWM TEYLNRHLHT WIQDNGGWDA FVELYGPSM            
2xa0A     168   plvdnialwm teylnrhlht wiqdnggwda fvelygpsm-           
                                                                      
TARGET          hhhhhhhhhh hhhhhhhhhh hhhh    hh hhhhh                
2xa0A           hhhhhhhhhh hhhhh   hh hhhh    hh hhhhhhh

Quality 


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

 
Quaternary Structure Annotation of the Template 
 2xa0 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: 2xa0.pdb1.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 2xa0_1

Template Selection 
 - Start SMR-Pipeline for:ec86dcd1e7a3854ca79bdc1926a019c1 on BC2-cluster at Fri May  3 22:19:08
2013 


 - Analyze BLAST summary ... 
 - Blast template search was successfull, number of templates selected for modeling:  2 go for
modeling ...

 - No A3m found

 - No template with C found
 - No template with D found
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:2): model based on new templates
 - Send 2 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                               ***************************************
 - building model based on 2xa0A (89-203) was successful 
 -  ********************************************************************
 - building model based on 1gjhA (3-204) 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:ec86dcd1e7a3854ca79bdc1926a019c1 on BC2-cluster at Fri May  3 22:20:48
2013


Template Description
Match Chain SeqId

2o2f: SOLUTION STRUCTURE OF THE ANTI-APOPTOTIC PROTEIN BCL-2 IN COMPLEX WITH AN ACYL-SULFONAMIDE-BASED LIGAND
Solved by: NMR, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

89-201 2o2fA 99%
[Model]

2xa0: CRYSTAL STRUCTURE OF BCL-2 IN COMPLEX WITH A BAX BH3 PEPTIDE
Solved by: X-RAY, Resolution: 2.70A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

89-203 2xa0B 99%
[Model]
89-203 2xa0A 99%
[Model]

4aq3: HUMAN BCL-2 WITH PHENYLACYLSULFONAMIDE INHIBITOR
Solved by: X-RAY, Resolution: 2.40A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

89-200 4aq3D 97%
[Model]
89-200 4aq3B 97%
[Model]
89-200 4aq3A 97%
[Model]
89-200 4aq3E 97%
[Model]
89-200 4aq3C 97%
[Model]
89-200 4aq3F 97%
[Model]

2o21: SOLUTION STRUCTURE OF THE ANTI-APOPTOTIC PROTEIN BCL-2 IN COMPLEX WITH AN ACYL-SULFONAMIDE-BASED LIGAND
Solved by: NMR, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3-204 2o21A 74%
[Model]

1ysw: SOLUTION STRUCTURE OF THE ANTI-APOPTOTIC PROTEIN BCL-2 COMPLEXED WITH AN ACYL-SULFONAMIDE-BASED LIGAND
Solved by: NMR, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3-204 1yswA 74%
[Model]

2o22: SOLUTION STRUCTURE OF THE ANTI-APOPTOTIC PROTEIN BCL-2 IN AN ACYL-SULFONAMIDE-BASED LIGAND
Solved by: NMR, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3-204 2o22A 74%
[Model]

1gjh: HUMAN BCL-2, ISOFORM 2
Solved by: NMR, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3-204 1gjhA 74%
[Model]

1g5m: HUMAN BCL-2, ISOFORM 1
Solved by: NMR, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3-204 1g5mA 73%
[Model]

2w3l: CRYSTAL STRUCTURE OF CHIMAERIC BCL2-XL AND PHENYL TETRAHYDROISOQUINOLINE AMIDE COMPLEX
Solved by: X-RAY, Resolution: 2.10A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

9-203 2w3lA 69%
[Model]
9-201 2w3lB 71%
[Model]

4ehr: CRYSTAL STRUCTURE OF BCL-XL COMPLEX WITH 4-(5-BUTYL-3-(HYD1-PHENYL-1H-PYRAZOL-4-YL)-3-(3,4-DIHYDRO-2(1H)- ISOQUINOLINYLCARBONYL)-N-((2-(TRIMETHYLSILYL)ETHYL)SULFON
Solved by: X-RAY, Resolution: 2.09A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

90-200 4ehrA 67%
[Model]

2yxj: CRYSTAL STRUCTURE OF BCL-XL IN COMPLEX WITH ABT-737
Solved by: X-RAY, Resolution: 2.20A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

90-200 2yxjA 67%
[Model]

3spf: CRYSTAL STRUCTURE OF BCL-XL BOUND TO BM501
Solved by: X-RAY, Resolution: 1.70A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

90-200 3spfA 67%
[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.