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
3mhhA 65535 aamsicphiq qvfqnekskd gvlktcnaar yilnhsvpke kflntmkcgt
3mhhA hhh h hhhhhh hhhhhhhhhh hhhh hhh hhh sss
3mhhA 49 cheinsgatf mclqcgfcgc wnhshflshs kqighifgin snngllfcfk
3mhhA sss sss sss ssss s hhhhhh hh sssss s sssss
3mhhA 99 cedyignidl indailakyw ddvctktmvp smerrdglsg linmgstcfm
3mhhA sss hh h hhhhhh h hhh
3mhhA 149 ssilqclihn pyfirhsmsq ihsnnckvrs pdkcfscald kivhelygal
3mhhA hhhhhhh hhhhhhh hhh hhhhhh hhhhhh
3mhhA 199 nttstnrqtg fiylltcawk insqqdahef wqfiinqihq syvldlpnak
3mhhA hh hhhhhhhhhh h hhhh hhhhhhhhhh hhhhh hh
TARGET 1 EPF SVFSVDIRNH
3mhhA 262 evsrannkqc ecivhtvfeg slessivqnn sktti--dpf ldlsldikdk
TARGET sss
3mhhA hhhhh h s sssssss ssss sss sss
TARGET 14 SSLTESLEQY VKGELLEGAD AYHCDKCDKK VVTVKRVCVK KLPPVLAIQL
3mhhA 314 kklyecldsf hkkeqge--- ------cn-- --aikqlgih klpsvlvlql
TARGET hhhhhhh hhhhh sss s ss ssss
3mhhA hhhhhhhh h sssssss sssssss
TARGET 64 KRFEYDYERV CAIKFNDYFE FPRILDMEPY TVSGLAKLEG EVVEVGDNCQ
3mhhA 363 krfehllng- snrklddfie fptylnmkny c--------- ----------
TARGET ssssss sssss sssss
3mhhA ssssss sssss sssss
TARGET 114 TNVETTKYEL TGIVVHSGQA SGGHYFSYIL SKNPANGKCQ WYKFDDGEVT
3mhhA 393 skvpdiiyel igivshkgtv neghyiafc- --kisgg--q wfkfndsmvs
TARGET sssss sssssss sssssss s s sssss sss
3mhhA ssssss sssssss ssssss ss s sssss sss
TARGET 164 ECKMHEDEEM KAECF ---- -----
3mhhA 449 s--isqeevl keqayllfyt irqvn
TARGET hhhhh
3mhhA hhhhh ssssss sssss
Template's ligands section
Ligands in the template:ZN : 5.
Ligands in the template that will be assessed: ZN472, ZN473, ZN474, ZN475, ZN476.
Model's ligands section
ZN472
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.ZN472 will not be included in the final model.
ZN472: conservation:False, RMSD:False, included: False
ZN473
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.ZN473 will not be included in the final model.
ZN473: conservation:False, RMSD:False, included: False
ZN474
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.ZN474 will not be included in the final model.
ZN474: conservation:False, RMSD:False, included: False
ZN475
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.ZN475 will not be included in the final model.
ZN475: conservation:False, RMSD:False, included: False
ZN476
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.ZN476 will not be included in the final model.
ZN476: conservation:False, RMSD:False, included: False
No ligands were included in the model.
Quaternary Structure Annotation of the Template
3mhh is annotated as HETERO TETRAMER
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: 3mhh.pdb1.gz
Quaternary Structure Modelling of the Target Protein
3mhh_1
Template Selection
- Start SMR-Pipeline for:2696f68c8d5958f3f281bdadd7bebe03 on BC2-cluster at Fri Feb 22 05:44:01
2013
- Analyze BLAST summary ...
- No templates found with BLAST (seqid-cutoff: 60): go to HHSEARCH
FATAL - No A3m found
- Run HHSearch to detect more templates...
FATAL - No templates found in HHSEARCH, strange
- No template with H found
- No template with B found
- No template with F found
- No template with D found
- No template with B found
- No template with B found
- No template with C found
- No template with E found
- No template with B found
- No template with C found
- No template with D found
- No template with E found
- No template with B found
- No template with B found
- No template with B found
- No template with C found
- No template with D found
- No template with D found
- No template with C found
- No template with B found
- No template with C found
- No template with E found
- No template with B found
- No template with C found
- No template with D found
- No template with F found
- No template with G found
- No template with H found
- No template with B found
- No template with C found
- No template with D found
- No template with F found
- No template with G found
- No template with H found
- No template with B found
- No template with F found
- No template with B found
- No template with B found
- No template with B found
- No template with B found
- No template with B found
- No template with D found
- Warning: Oligomer Prediction was not successfull!
- 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 3mhhA (1850-2027) was successful
- *******
- building model based on 4fipE (1798-2027) was successful
- ***********
- building model based on 1nbfA (1666-2061) was not successful go to next best template
- ***********
- building model based on 1nbfB (1666-2061) was not successful go to next best template
- ***********
- building model based on 1nbfE (1666-2061) was not successful go to next best template
- ***********
- building model based on 1nb8B (1666-2061) 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:2696f68c8d5958f3f281bdadd7bebe03 on BC2-cluster at Fri Feb 22 05:50:38
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.