SWISS-MODEL Repository 
Uniprot features:
SWISS-MODEL Repository - Model Details
Model Overview
Sequence
Domain
Model 3D Structure
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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 ]
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Alignment
TARGET 1 AAPPGEAD LQVAFDIVCD NVGRDWKRLA RELKVSEAKM DGIEEKYPRS
1fadA 89 aappgeay lqvafdivcd nvgrdwkrla relkvseakm dgieekyprs
TARGET hh hhhhhhhhhh hhhhhhh hhh hhhh hhhhhh
1fadA hh hhhhhhhhhh hhhhhhh hhh hhhh hhhhhh
TARGET 49 LSERVRESLK VWKNAEKKNA SVAGLVKALR TCRLNLVADL VEEAQES
1fadA 137 lservreslk vwknaekkna svaglvkalr tcrlnlvadl veeaqes-
TARGET hhhhhhhhhh hhhhh hhhhhhhh hh hhhhh hhhhh
1fadA hhhhhhhhhh hhhhh hhhhhhhh hh hhhhh hhhhh
Template's ligands section
Template without ligands.
No ligands were included in the model.
Quaternary Structure Annotation of the Template
1fad is annotated as MONOMER
The template structure (1fad) was solved by NMR and does not contain any quaternary structure annotation
The template is annotated by the number of chains found in the PDB file
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 0.194 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:cc332f28de1ce08cbc6310b9bc669007 on BC2-cluster at Sat Feb 23 04:34:21
2013
- Analyze BLAST summary ...
- Blast template search was successfull, number of templates selected for modeling: 3 go for
modeling ...
FATAL - No A3m found
- No template with M found
- No template with O found
- No template with I found
- No template with K found
- No template with E found
- No template with G found
- No template with A found
- No template with C found
- No template with A found
- No template with B found
- No template with C found
- No template with D found
- No template with E found
- Proof template(s) selection compared to previous Repository update
- Different number of templates selected (old0 vs new:3): model based on new templates
- Send 3 Templates for modeling
- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
- *************************************
- building model based on 1fadA (89-183) was successful
- ********************************
- building model based on 1a1wA (1-83) was successful
- ***********************************************************************
- building model based on 2gf5A (2-183) 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:cc332f28de1ce08cbc6310b9bc669007 on BC2-cluster at Sat Feb 23 04:35:28
2013
Template Search
| Template Description |
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1fad: DEATH DOMAIN OF FAS-ASSOCIATED DEATH DOMAIN PROTEIN, RESIDUES 89-183 Solved by: NMR, Identified by BLAST |
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1a1z: FADD DEATH EFFECTOR DOMAIN, F25G MUTANT, NMR MINIMIZED AVERAGE STRUCTURE Solved by: NMR, Identified by BLAST |
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1a1w: FADD DEATH EFFECTOR DOMAIN, F25Y MUTANT, NMR MINIMIZED AVERAGE STRUCTURE Solved by: NMR, Identified by BLAST |
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2gf5: STRUCTURE OF INTACT FADD (MORT1) Solved by: NMR, Identified by BLAST |
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1e41: DEATH DOMAIN FROM HUMAN FADD/MORT1 Solved by: NMR, Identified by BLAST |
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3ezq: CRYSTAL STRUCTURE OF THE FAS/FADD DEATH DOMAIN COMPLEX Solved by: X-RAY, Resolution: 2.73A, Identified by BLAST |
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1e3y: DEATH DOMAIN FROM HUMAN FADD/MORT1 Solved by: NMR, Identified by BLAST |
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3oq9: STRUCTURE OF THE FAS/FADD DEATH DOMAIN ASSEMBLY Solved by: X-RAY, Resolution: 6.80A, Identified by BLAST |
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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.