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 CNQCLTS MAELKKCSAC RRLAYCSQEC QRADWKLHKV ECKA -
2jw6A 503 s--cvncgre --amsectgc hkvnycstfc qrkdwkdhqh icgqsa
TARGET hh hhh hhh
2jw6A hh hhh hhh
Template's ligands section
Ligands in the template:ZN : 2.
Ligands in the template that will be assessed: ZN493, ZN494.
Model's ligands section
ZN493
All the residues interacting with the ligand are completely conserved between model and template.
The RMSD between the interacting residues of model and template is smaller than 2 Angstrom: 0.060
Given the properties calculated previously, the ligand A.ZN493 will be included in the final model.
ZN493: conservation:True, RMSD:True, included: True
ZN494
All the residues interacting with the ligand are completely conserved between model and template.
The RMSD between the interacting residues of model and template is smaller than 2 Angstrom: 0.070
Given the properties calculated previously, the ligand A.ZN494 will be included in the final model.
ZN494: conservation:True, RMSD:True, included: True
The new model with the included ligands was saved successfully.
Quaternary Structure Annotation of the Template
2jw6 is annotated as MONOMER
The template structure (2jw6) 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
The target and template sequences are too diverse (seqid: 36.585) 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:e2e18a604c91ea17dda0a8aa54323f69 on BC2-cluster at Wed Feb 20 21:28:40
2013
- Analyze BLAST summary ...
- No templates found with BLAST (seqid-cutoff: 60): go to HHSEARCH
- Run HHSearch to detect more templates...
- Generate new template library
- Run template selection against modfied template library
- Summarize templates:
- No template with B 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
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- building model based on 2jw6A (26-66) was successful
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- building model based on 3qwpA (14-249) was not successful go to next best template
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- building model based on 3pdnA (14-249) was not successful go to next best template
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- building model based on 3ru0B (14-249) 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:e2e18a604c91ea17dda0a8aa54323f69 on BC2-cluster at Wed Feb 20 21:30:46
2013
Template Search
| Template Description |
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2jw6: SOLUTION STRUCTURE OF THE DEAF1 MYND DOMAIN Solved by: NMR, Identified by HHSEARCH |
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4a24: STRUCTURAL AND FUNCTIONAL ANALYSIS OF THE DEAF-1 AND BS69 MYND DOMAINS Solved by: NMR, Identified by HHSEARCH |
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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.