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 PYANGDPHVG HALNKILKDI ANRFHMMRGS KVHFVPGWDC
3h9cA 4 akkilvtcal pyangsihlg hmlehiqadv wvryqrmrgh evnficadda
TARGET hh hhhhhhhhhh hhhhhhh
3h9cA ssssssss hh hhhhhhhhhh hhhhhhh ssssssss
TARGET 41 HGLPIETKVL SELGVDAQSL SAMEIREKAR SFA ------ ----------
3h9cA 54 hgtpimlka- qqlgitpeqm igemsqehqt dfagfnisyd nyhsthseen
TARGET hhhhhhhh hhhh hhhhhhhhhh hhh
3h9cA hhhhhhh hhh hhhh hhhhhhhhhh hhhhh sssss hhh
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 103 rqlseliysr lkengfiknr tisqlydpek gmflpdrfvk gtcpkckspd
TARGET
3h9cA hhhhhhhhhh hhhh sssss sssssss sss sss sss sss
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 153 qygdncevcg atysptelie pksvvsgatp vmrdsehfff dlpsfsemlq
TARGET
3h9cA ssssss sss sss ssssssssss s h hhhh
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 203 awtrsgalqe qvankmqewf esglqqwdis rdapyfgfei pnapgkyfyv
TARGET
3h9cA hhhh h hhhhhhhhhh hh ssss sss sss sssss
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 253 wldapigymg sfknlcdkrg dsvsfdeywk kdstaelyhf igkdivyfhs
TARGET
3h9cA hhhhhhhhhh hhhhhhhhh hhhhh sssss s hhhh
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 303 lfwpamlegs nfrkpsnlfv hgyvtvngak msksrgtfik astwlnhfda
TARGET
3h9cA hhhhhhh ssss s sssss hhhhh
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 353 dslryyytak lssriddidl nledfvqrvn adivnkvvnl asrnagfink
TARGET
3h9cA hhhhhhhhhh sss hhhhhhhhh hhhhhhhhhh hh hhhhh
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 403 rfdgvlasel adpqlyktft daaevigeaw esrefgkavr eimaladlan
TARGET
3h9cA h ssss hhhhhhhh hhhhhhh hhhhhhh hhhhhhhhhh
TARGET ---------- ---------- ---------- ---------- ----------
3h9cA 453 ryvdeqapwv vakqegrdad lqaicsmgin lfrvlmtylk pvlpkltera
TARGET
3h9cA hhhhh hh hh hhh hhhhhhhhhh hhhhhhh h hhhhhh
TARGET ---------- ---------- ---------- ---------- -----
3h9cA 503 eaflnteltw dgiqqpllgh kvnpfkalyn ridmrqveal veask
TARGET
3h9cA hhhh hhh ss ss hhhhhh hhhh
Template's ligands section
Ligands in the template:CIT : 1,ZN : 1.
Ligands in the template that will be assessed: ZN601.
Model's ligands section
ZN601
There are not residues in the model that match the ones that interact with the ligand in the template.
Given the properties calculated previously, the ligand A.ZN601 will not be included in the final model.
ZN601: conservation:False, RMSD:False, included: False
No ligands were included in the model.
Quaternary Structure Annotation of the Template
3h9c 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: 3h9c.pdb1.gz
Quaternary Structure Modelling of the Target Protein
The target and template sequences are too diverse (seqid: 38.356) to infer a conservation of the oligomeric state
Please use the advancend features of the SwissModel Project Mode
The target structure was calculated as SINGLE CHAIN
Template Selection
- Start SMR-Pipeline for:eff428bc203c31d4ea4d610a6e345e76 on BC2-cluster at Sat Feb 23 07:26:01
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
- 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 1qu3A (60-854) was not successful go to next best template
- ******
- building model based on 3h9cA (116-188) was successful
- ***************************************************************************
- building model based on 1ffyA (60-1009) was not successful go to next best template
- ***************************************************************************
- building model based on 1qu2A (60-1009) was not successful go to next best template
- ************
- building model based on 1wnyB (268-420) was successful
- ****************
- building model based on 1wk8B (268-464) was successful
- ************
- building model based on 2csxB (117-265) was successful
- ***********************************************************
- building model based on 1ileA (99-849) was not successful go to next best template
- ***********************************************************
- building model based on 1jzsA (99-849) 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:eff428bc203c31d4ea4d610a6e345e76 on BC2-cluster at Sat Feb 23 07:50:02
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.