SWISS-MODEL Repository
Uniprot features:
SWISS-MODEL Repository - Model Details
Model Overview
Sequence
| UniProt | Q7YTU4 |
Database: TrEMBL (Unreviewed)  |
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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 CFCKGFE AVEPCDCSKP QTIDKLNNHR IYEKVQKLLK KDFFRFYKVN
3ahqA 34 r--cfcqvsg ylddctcdv- etidrfnnyr lfprlqklle sdyfryykvn
TARGET ssss sss hhhhhhhh hhhhhhhhh hhsssss
3ahqA ssss sss hhhhhhhhhh hhhhhhhhh hhsssss
TARGET 48 MDKTCPFWAD DRQCGTNQCG IAFCDDEVPA GLRRRNAVNM EAAAVKEEED
3ahqA 81 lkrpcpfw-- ---------- ---------- ---------- ---------n
TARGET sssss h hhhh s sssss
3ahqA
TARGET 98 DDAEKCADAG NNIDPMDRTL HDDEKRQLDA MDHHDDGLED KFCEIEDDES
3ahqA 132 eqaer----- --lgavdesl seetqkavlq wtkhdds--- -----sdnfs
TARGET ssss ssss hhhhhhhhh hhhhh
3ahqA hhh hh hhhhhhhhh hhhhhh
TARGET 148 DGMHYVDLSK NPERYTGYAG KSPQRVWKSI YEENCFKPDP KFDKNFLTNP
3ahqA 174 peaeyvdlll nperytgykg pdawkiwnvi yeencfkp-- ----------
TARGET sssss hhhhhhhhhh hh hhh
3ahqA sssss hhhhhhhhhh hh
TARGET 198 SNFGMCLEKR VFYRLISGLH SAITISIAAY NYKPPPPSLG QFGSQMGTWF
3ahqA 239 ---glcvekr afyrlisglh asinvhlsar -------yll qetwlekkwg
TARGET hh hhhhhhhhhh hhhhhh h hh ss sss sss
3ahqA hhhhhhhhhh hhhhhhhhh sss sss sssss
TARGET 248 RNTEMFAGRF G-TKWSWEGP QRLRNVYFIY LLELRALLKA APYLQNELF-
3ahqA 279 hnitefqqrf dgiltegegp rrlknlyfly lielralskv lpfferpdfq
TARGET hhhhhhh hh hhhhhhhhhh hhhhhhhh hhh
3ahqA hhhhhhh hh hhhhhhhhhh hhhhhhhh hhh
TARGET 296 -YTGNDVEDA ETRKAVEDLL EEIRAYPNHF DESEMFTGVE SHARALREEF
3ahqA 329 lftgnkiqde enkmllleil heiksfplhf densffagdk keahklkedf
TARGET hhh hhhhhhhhhh hhhhh ssss s hhhhhhhhhh
3ahqA hhh hhhhhhhhhh hhhhh ssss s hhhhhhhhhh
TARGET 345 RSHFVNISRI MDCVECDKCR LWGKVQTHGM GTALKILFSD -----LPHSH
3ahqA 379 rlhfrnisri mdcvgcfkcr lwgklqtqgl gtalkilfse klianmpes-
TARGET hhhhhhhhhh h hhhh hhhhhhhhhh hhhhhhhh
3ahqA hhhhhhhhhh hh hhhh hhhhhhhhhh hhhhhh h hhhh
TARGET 390 YKQDSSKFQL TRNEVVALLQ SFGRYSSSIL EVDNFR ---
3ahqA 428 --gpsyefhl trqeivslfn afgristsvk elenfrnllq
TARGET hhhhhhhhh hhhhhhhhhh hhhhhh
3ahqA hhhhhhhhh hhhhhhhhhh hhhhhhhh
Template's ligands section
Ligands in the template:FAD : 1.
Ligands in the template that will be assessed: FAD1.
Model's ligands section
FAD1
Not all the residues interacting with the ligand are completely conserved between model and template.
No RMSD calculation will be performed.
Given the properties calculated previously, the ligand A.FAD1 will not be included in the model.
FAD1: conservation:False, RMSD:False, included: False
No ligands were included in the model.
Quaternary Structure Annotation of the Template
3ahq 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: 3ahq.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 0.396 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:7af0eedb6c34257db9a6042f2b70c980 on BC2-cluster at Wed Feb 20 16:18:53
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:1): model based on new templates
- Send 1 Templates for modeling
- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
- ***********************************************************************
- building model based on 3ahqA (28-452) 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:7af0eedb6c34257db9a6042f2b70c980 on BC2-cluster at Wed Feb 20 16:21:37
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.