SWISS-MODEL Repository 
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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 TYNPEPDQ RWMLPPGWVS LGRVDPEEEL SLTFALKQRN LERLSELVQA
3edyA 20 syspepdq rrtlppgwvs lgradpeeel sltfalrqqn verlselvqa
TARGET ssss ssss sss sssssss hhhhhhhhhh
3edyA ssss ssss sss sssssss hhhhhhhhhh
TARGET 49 VSDPSSPQYG KYLTLEDVAE LVQPSPLTLL TVQKWLSAAG ARNCDSVTTQ
3edyA 68 vsdpsspqyg kyltlenvad lvrpspltlh tvqkwllaag aqkchsvitq
TARGET hh hhhhhh hh hhhhh hhhhhhhhh
3edyA hh hhhhhh hh hhhhh hhhhhhhhh
TARGET 99 DFLTCWLSVR QAELLLPGAE FHRYVGGPTK THVIRSPHPY QLPQALAPHV
3edyA 118 dfltcwlsir qaelllpgae fhhyvggpte thvvrsphpy qlpqalaphv
TARGET sssssssssh hhhhh sssssss s sssss ss
3edyA sssssssssh hhhhh sssssss s sssss ss
TARGET 149 DFVGGLHRFP PSSP-RQRPE PQQVGTVSLH LGVTPSVLRQ RYNLTAKDVG
3edyA 168 dfvgglhrfp ptsslrqrpe pqvtgtvglh lgvtpsvirk rynltsqdvg
TARGET ssss hhhhhh hh
3edyA ssss hhhhhh hh
TARGET 198 SGTTNNSQAC AQFLEQYFHN SDLTEFMRLF GGSFTHQASV AKVVGKQGRG
3edyA 218 sgtsnnsqac aqfleqyfhd sdlaqfmrlf ggnfahqasv arvvgqqgrg
TARGET sss s h hhhhhhhhh sssss
3edyA sss s h hhhhhhhhh sssss
TARGET 248 RAGIEASLDV EYLMSAGANI STWVYSSPGR HEAQEPFLQW LLLLSNESSL
3edyA 268 ragieasldv qylmsagani stwvysspgr hegqepflqw lmllsnesal
TARGET hhhhhhh hh h ssssss hhhhh hhh
3edyA hhhhhhh hhh ssssss hhhhh hhh
TARGET 298 PHVHTVSYGD DEDSLSSIYI QRVNTEFMKA AARGLTLLFA SGDTGAGCWS
3edyA 318 phvhtvsygd dedslssayi qrvntelmka aargltllfa sgdsgagcws
TARGET ssssss s ss hhhh hhhhhhhhhh hh sssss ssss ss
3edyA ssssss s ss hhhh hhhhhhhhhh hhh sssss ssss ss
TARGET 348 VSGRHKFRPS FPASSPYVTT VGGTSFKNPF LITDEVVDYI SGGGFSNVFP
3edyA 368 vsgrhqfrpt fpasspyvtt vggtsfqepf litneivdyi sgggfsnvfp
TARGET s sss ss s ss sssss sss s ss sss ss
3edyA s sss ss s ss sssss sss s ss sss ss
TARGET 398 RPPYQEEAVA QFLKSSSHLP PSSYFNASGR AYPDVAALSD GYWVVSNMVP
3edyA 418 rpsyqeeavt kflsssphlp pssyfnasgr aypdvaalsd gywvvsnrvp
TARGET s hhhhh hhhh sss ss sss ss ssssss ss
3edyA s hhhhh hhhh sss ss ssssss s sss ss
TARGET 448 IPWVSGTSAS TPVFGGILSL INEHRILNGR PPLGFLNPRL YQQHGTGLFD
3edyA 468 ipwvsgtsas tpvfggilsl inehrilsgr pplgflnprl yqqhgaglfd
TARGET ssssss hhh hhhhhhhhhh hhhhhhhh hhhh hh sss
3edyA s sss hhh hhhhhhhhhh hhhhhhhh hhhh hh sss
TARGET 498 VTHGCHESCL NEEVEGQGFC SGPGWDPVTG WGTPNFPALL KTLLNP
3edyA 518 vtrgchescl deevegqgfc sgpgwdpvtg wgtpnfpall ktllnp-
TARGET sssss sssss s ssshhhhh h
3edyA sssss sssss s ssshhhhh h
Template's ligands section
Ligands in the template:EDO : 2.
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
3edy 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: 3edy.pdb1.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 0.232 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:55629f60ed1f8a10e395d5abb617150f on BC2-cluster at Fri Feb 22 13:38:05
2013
- Analyze BLAST summary ...
- Blast template search was successfull, number of templates selected for modeling: 1 go for
modeling ...
FATAL - No A3m found
- Proof template(s) selection compared to previous Repository update
- Different number of templates selected (old0 vs new:1): model based on new templates
- Send 1 Templates for modeling
- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
- *****************************************************************************
- building model based on 3edyA (20-562) 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:55629f60ed1f8a10e395d5abb617150f on BC2-cluster at Fri Feb 22 13:40:18
2013
Template Search
| Template Description |
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3edy: CRYSTAL STRUCTURE OF THE PRECURSOR FORM OF HUMAN TRIPEPTIDYL-PEPTIDASE 1 Solved by: X-RAY, Resolution: 1.85A, Identified by BLAST |
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3ee6: CRYSTAL STRUCTURE ANALYSIS OF TRIPEPTIDYL PEPTIDASE -I Solved by: X-RAY, Resolution: 2.35A, 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.