SWISS-MODEL Repository
Uniprot features:
SWISS-MODEL Repository - Model Details
Model Overview
Sequence
| UniProt | P29993 |
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 GGDVVRLF HAEQEKFLTM DEYKKQYHVF LRTTGRTSAT AATSSKALWE
1n4kA 236 ggdvvrlf haeqekfltc dehrkkqhvf lrttgrqsat satsskalwe
TARGET ssssss ss sssss sss sssss sss sss
1n4kA ssssss ss sssss sss sssss sss sss
TARGET 49 IEVVQHDSCR GGAGDWNSLY RFKHLATGHY LAAEAEIDVS AGAMSATSAS
1n4kA 284 vevvq----- --------lf rfkhlatghy laaevdm--- ----------
TARGET ssss ss sssss ss ssss hhhhh hhhhhhhhhh
1n4kA ssss ss sssss ss ssssss
TARGET 99 GHDLHLGDCS KDSGLSCSTM NSTINDKPKG KQYRLVSVPY SADIASVFVL
1n4kA 352 ---------- ---------- ---------- -vyslvsvpe gndissifel
TARGET sss sss hhhh ssssss ss
1n4kA sssssss ss
TARGET 149 DATTMARPDS LVPQSSYVRL QHICSNTWVH ATSIPIDADD DKPVMSMVCC
1n4kA 371 dp-------- ------yvrl rhlctntwvh stnipidkee ekpvmlkigt
TARGET s ssssss sssss ss sss sssss sss sssssss
1n4kA s ss sss sssss sss sssssss
TARGET 199 SPIKEDKEAF ALIPVSPVEV RDLDFANDAC KVLATVTSKL DNGSISINER
1n4kA 421 splkedkeaf aivpvspaev rdldfandas kvlgsiagkl ekgtitqner
TARGET s ss sssss hhhh hhhhhhhhhh hhhhhhhhhh hh hhhh
1n4kA s ss sssss hhhh hhhhhhhhhh hhhhhhhhhh hh hhhh
TARGET 249 RALISLLQDI VYFIAGMENE QNKTKALEFT IKNPIRDRQK LLREQYILKQ
1n4kA 471 rsvtklledl vyfvtggtn- -sgqdvlevv fskpnrerqk lmreqnilkq
TARGET hhhhhhhhhh hhhhh hhhh hhhhh hhh hhhh
1n4kA hhhhhhhhhh hhhh hhhh hhhhh hhh hhhh
TARGET 299 LFKILQGPFQ EHTAGDGPFL RLDELSDPKN SPYKNIFRLC YRILRLSQQD
1n4kA 519 ifkllqapf- ---------- --------th apfrhicrlc yrvlrhsqqd
TARGET hhhhhhh ss s sss hhhhhhhhhh hhhhhhhh
1n4kA hhhhhhh hhhhhhhhhh hhhhhhhh
TARGET 349 YRKNQEYIAK HFGLMQKQIG YDILAEDTIT ALLHNN
1n4kA 567 yrknqeyiak qfgfmqkqig ydvlaedtit allhnn-
TARGET hhhhhhhhh hhhhhhhhh hhhhhhhh hhh
1n4kA hhhhhhhhh hhhhhhhh hhhhhhhhh hhh
Template's ligands section
Ligands in the template:I3P : 1.
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
1n4k 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: 1n4k.pdb1.gz
Quaternary Structure Modelling of the Target Protein
The target and template sequences are too diverse (seqid: 52.865) 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:dde7ff219a8164e27118f586e24b225e on BC2-cluster at Fri Feb 22 05:32:42
2013
- Analyze BLAST summary ...
- Blast template search was successfull, number of templates selected for modeling: 2
- But still uncovered regions of the target sequence detected, go for: HHSEARCH
FATAL - No A3m found
- 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
- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
- ******
- Oligomeric modeling of 1xzzA was not successful, fall back to monomeric modeling
- building model based on 1xzzA (10-233) was not successful go to next best template
- ******
- Oligomeric modeling of 3jrrB was not successful, fall back to monomeric modeling
- building model based on 3jrrB (9-230) was not successful go to next best template
- ******
- Oligomeric modeling of 3jrrA was not successful, fall back to monomeric modeling
- building model based on 3jrrA (9-230) was not successful go to next best template
- *****************
- building model based on 3t8sA (10-604) was not successful go to next best template
- *****************
- building model based on 3uj0B (9-609) was not successful go to next best template
- *****************
- building model based on 3uj0A (9-609) was not successful go to next best template
- *****************
- building model based on 3uj4B (10-605) was not successful go to next best template
- ******
- building model based on 1xzzA (10-233) was not successful go to next best template
- ******
- building model based on 3jrrB (9-230) was not successful go to next best template
- ******
- building model based on 3jrrA (9-230) was not successful go to next best template
- *****************
- building model based on 3t8sA (10-604) was not successful go to next best template
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- building model based on 3uj0B (9-609) was not successful go to next best template
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- building model based on 3uj0A (9-609) was not successful go to next best template
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- building model based on 3uj4A (10-601) was not successful go to next best template
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- building model based on 3uj4B (10-605) was not successful go to next best template
- *****************
- building model based on 3t8sB (10-604) was not successful go to next best template
- ***********
- building model based on 1n4kA (243-626) was successful
- ******
- building model based on 2xoaA (117-322) 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:dde7ff219a8164e27118f586e24b225e on BC2-cluster at Fri Feb 22 05:47:17
2013
Template Search
| Template Description |
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1xzz: CRYSTAL STRUCTURE OF THE LIGAND BINDING SUPPRESSOR DOMAIN OF TYPE 1 INOSITOL 1,4,5-TRISPHOSPHATE RECEPTOR Solved by: X-RAY, Resolution: 1.80A, Identified by BLAST |
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3jrr: CRYSTAL STRUCTURE OF THE LIGAND BINDING SUPPRESSOR DOMAIN INOSITOL 1,4,5-TRISPHOSPHATE RECEPTOR Solved by: X-RAY, Resolution: 1.90A, Identified by BLAST |
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3t8s: APO AND INSP3-BOUND CRYSTAL STRUCTURES OF THE LIGAND-BINDIAN INSP3 RECEPTOR Solved by: X-RAY, Resolution: 3.77A, Identified by BLAST |
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3uj0: CRYSTAL STRUCTURE OF THE INOSITOL 1,4,5-TRISPHOSPHATE RECELIGAND BOUND FORM. Solved by: X-RAY, Resolution: 3.60A, Identified by BLAST |
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3uj4: CRYSTAL STRUCTURE OF THE APO-INOSITOL 1,4,5-TRISPHOSPHATE Solved by: X-RAY, Resolution: 3.00A, Identified by BLAST |
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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.