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
2qshA 123 darrtsrnvc sneerkrrky fhmlylvclm vhgfirnewi nskrlsrkls
2qshA hhhhh hhhhhhhhh hhhhhhhhhh hhhhhhhhh hhhhhhhh
2qshA 173 nlvpekvfel lhpqkdeelp lrstrklldg lkkcmelwqk hwkitkkydn
2qshA h hhhhhh hhhhhhhhhh hhhhhhhhhh h
2qshA 223 eglymrtwke iemsannkrk fktlkrsdfl ravskghgdp disvqgfvam
2qshA hhh hhhhh hhhhh hhhhh h hhhhhhhhhh
TARGET 1 WLEVY
2qshA 273 lracnvnarl imscqppdft nmkidtslng nnaykdmvky pif--wcevw
TARGET ssss
2qshA hhh ssss ssss hhhhhh ss sssss
TARGET 6 CEPQAKWVCV DCVHG----- ------VVGQ PVACYKYATK PMTYVVGIDS
2qshA 321 dkfskkwitv dpvnlktieq vrlhsklapk gvacce--rn mlryviaydr
TARGET s sssss hhh sssss
2qshA s sssss s sss hhhh sssss
TARGET 45 DGWVRDVTQR YDPAWMTATR K-CRVDAEWW AE-TLRPYRS LLTEREKKED
2qshA 369 kygcrdvtrr y-aqwmnskv rkrritkddf gekwfrkvit alhhrkrtki
TARGET sssss hhhh hhhhh hh
2qshA sss hh h hhhhh hh hh hhhhhhhhhh hh h
TARGET 93 -----QEFQA KHLDQPLPTS ISTYKNHPLY ALKRHLLKFQ AIYPETAAVL
2qshA 418 ddyedqyffq rdesegipds vqdlknhpyy vleqdikqtq ivkpgckec-
TARGET hhh hhh hh ss sss ss sss
2qshA hhhhhhhhhh hhhh hh ss sss ss sss
TARGET 138 GYCR------ -GEAVYSRDC VHTLHSRDTW LKQARVVRLG EVPYKMVKGF
2qshA 467 gylkvhgkvg kvlkvyakrd iadlksarqw ymngrilktg srckkvik--
TARGET sss ssssss s ssss hhhh h sssss sss s
2qshA sssss ssssssss s ssss hhhh h sssss ssss
TARGET 181 SNRARKARLS EPQLHDHNDL GLYGHWQTEE YQPPIAVD-G KVPRNEFGNV
2qshA 515 -------rtv e------ede rlysfedtel yipplasasg eitkntfgni
TARGET ss sss s ss ssss s s
2qshA s sss ss ssss s s
TARGET 230 YLFLPSMMPV GCVQMTLPNL NRVARKLGID CVQAITGFDF HG-GYCHPVT
2qshA 560 evfaptmipg ncclvenpva ikaarflgve fapavtsfkf ergstvkpvl
TARGET ss sssss h hhhhhhh ssssssss ssss
2qshA ss sssss h hhhhhhh ssssssss ssss
TARGET 279 DGYIVCEEFR DVLLAA --- ---
2qshA 610 sgivvakwlr eaietaidgi efi
TARGET sssssss h hhhhhh
2qshA sssssss hhhhhhhh
Template's ligands section
Ligands in the template:DA : 1,DG : 1,DT : 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
2qsh 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: 2qsh.pdb1.gz
Quaternary Structure Modelling of the Target Protein
2qsh_1
Template Selection
- Start SMR-Pipeline for:c684d9df9fa237d658c452e51409b69a on BC2-cluster at Fri Feb 22 21:34:45
2013
- Analyze BLAST summary ...
- No templates found with BLAST (seqid-cutoff: 60): go to HHSEARCH
- Run HHSearch to detect more templates...
FATAL - No templates found in HHSEARCH, strange
- No template with X found
- No template with X found
- No template with X found
- Warning: Oligomer Prediction was not successfull!
- 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 2qshA (524-817) 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:c684d9df9fa237d658c452e51409b69a on BC2-cluster at Fri Feb 22 21:36:40
2013
Template Search
no data available!
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.