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1
362

Sequence
UniProt P56485
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
P56485: 10090.ENSMUSP000

Domain
Link to: [ InterPro ]

Model 3D Structure
Model information:
Modelled residue range: 248 to 318
Based on template: [ 3oe8 ]  
Sequence Identity [%]: 36%
Model date: 2015-11-02
Revision date: 2015-10-15

Quaternary structure information: [details]
Template (3oe8): TRIMER
Model built: SINGLE CHAIN

Ligand information: [details]
Ligands in the template: ITD: 1.
Ligands in the model: none.
Template Links: [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  
display model: in [ AstexViewer ]
download model: as [ pdb ] - as [ Deepview project ]

This model has not been updated since 2015-10-15. In the meantime, new template structures may have become available which would allow building a more reliable model. Please use the SWISS-MODEL server to interactively compute a new model for your target protein: Build New Model Interactively



Alignment

                                                       
3oe8A     27    pcnfnkiflp tiysiifltg ivgnglvilv mgyqkklrsm tdkyrlhlsv
                                                                      
                                                       
3oe8A               hhhhhh hhhhhhhhhh hhhhhhhhhh hhh      h hhhhhhhhhh


                                                       
3oe8A     83    adllfvitlp fwavdavanw yfgnflckav hviytvnlys svwilafisl
                                                                      
                                                       
3oe8A           hhhhh   hh hhhhhhh        hhhhhh hhhhhhhhhh hhhhhhhhhh


                                                       
3oe8A     133   drylaivhat nsqrprklla ekvvyvgvwi pallltipdf ifanvseadd
                                                                      
                                                       
3oe8A           hhhhhhh       hhhhhhh hhhhhhhhhh hhhh   hhh hsssssss  


                                                       
3oe8A     183   ryicdrfypn dlwvvvfqfq himvglilpg ivilscycii isklshsgsn
                                                                      
                                                       
3oe8A           sssssss     hhhhhhhhh hhhhhhhhhh hhhhhhhhhh           


                                                       
3oe8A     1003  ifemlrideg lrlkiykdte gyytigighl ltkspslnaa kseldkaigr
                                                                      
                                                       
3oe8A             hhhhhh     ssssss    ssss   ss s     hhhh hhhhhhhh  


                                                       
3oe8A     1053  ntngvitkde aeklfnqdvd aavrgilrna klkpvydsld avrraalinm
                                                                      
                                                       
3oe8A              sss hhh hhhhhhhhhh hhh          hhhh   h hhhhhhhhhh


                                                       
3oe8A     1103  vfqmgetgva gftnslrmlq qkrwdeaavn laksrwynqt pnrakrvitt
                                                                      
                                                       
3oe8A           hhh   hhhh    hhhhhh    hhhhhhhh hh   hhh    hhhhhhhhh


TARGET    1                 HSSRKIIFS YVV---VFLV CWLPYHFVVL LDIFSILHYI
3oe8A     1153  frtgtwday- -hqkrkalkt tvililaffa cwlpyyigis idsfilleii
                                                                      
TARGET                        hhhhhhh         hh hhhhhhhhhh hhhhhhh   
3oe8A           hhh           hhhhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhh   


TARGET    37    PFTCQLENVL FTALHVTQCL SLVHCCVNPV LYSFI                
3oe8A     271   kqgcefentv hkwisiteal affhcclnpi lyafl-               
                                                                      
TARGET              hhhhhh hhhhhhhhhh hhhhhhhhhh hhhh                 
3oe8A               hhhhhh hhhhhhhhhh h   hhhhhh hhhh                 



Quality


Template's ligands section
Ligands in the template: ITD: 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
3oe8 is annotated as TRIMER
PISA was used to annotate the quaternary structure, because the author assignment was not complete
The template was built based on the following PISA annotation file: 3oe8_assembly.xml.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 (=TRIMER)
The target structure was calculated as SINGLE CHAIN
The corresponding reliability score is 0 (>0.5 indicates similarity)
To build the complex the following chains of the complex has been additionally identified: 3oe8C 3oe8B


Template Selection
 - Start SMR-Pipeline for:696e426b6811da0f95cc7de9f48c8b68 on BC2-cluster at Mon Nov  2 16:23:28
2015 


 - 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 modified template library 
 - Summarize templates: 
 - 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 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 B found
 - No template with A found
 - No template with C found
 - No template with B found
 - No template with I found
 - No template with I found
 - No template with I found
 - No template with I 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 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 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 B found
 - No template with B found
 - No template with A found
 - No template with B found
 - No template with G found
 - No template with N found
 - No template with B found
 - 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 3oe8A (248-318) was successful 
 -       ****************************************************************
 - building model based on 4zudA (27-317) was successful 
 -           *********************************************************************
 - building model based on 1l9hA (45-355) 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:696e426b6811da0f95cc7de9f48c8b68 on BC2-cluster at Mon Nov  2 16:31:32
2015 




Template Description
Match Chain SeqId

1fdf: HELIX 7 BOVINE RHODOPSIN
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

304-324 1fdfA 29%
[Model]

5c1m: CRYSTAL STRUCTURE OF ACTIVE MU-OPIOID RECEPTOR BOUND TO THBU72
Solved by: X-RAY, Resolution: 2.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-326 5c1mA 25%
[Model]

4xes: STRUCTURE OF ACTIVE-LIKE NEUROTENSIN RECEPTOR
Solved by: X-RAY, Resolution: 2.60A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

42-335 4xesA 20%
[Model]

4xee: STRUCTURE OF ACTIVE-LIKE NEUROTENSIN RECEPTOR
Solved by: X-RAY, Resolution: 2.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

42-334 4xeeA 19%
[Model]

4bwb: STRUCTURE OF EVOLVED AGONIST-BOUND NEUROTENSIN RECEPTOR 1 MUTANT WITHOUT LYSOZYME FUSION
Solved by: X-RAY, Resolution: 3.57A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

42-334 4bwbA 18%
[Model]
40-330 4bwbB 18%
[Model]

3zev: STRUCTURE OF THERMOSTABLE AGONIST-BOUND NEUROTENSIN RECEPTOR 1 MUTANT WITHOUT LYSOZYME FUSION
Solved by: X-RAY, Resolution: 3.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-332 3zevB 18%
[Model]
40-332 3zevA 19%
[Model]

4bv0: HIGH RESOLUTION STRUCTURE OF EVOLVED AGONIST-BOUND NEUROTENSIN RECEPTOR 1 MUTANT WITHOUT LYSOZYME FUSION
Solved by: X-RAY, Resolution: 3.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-332 4bv0A 18%
[Model]
40-334 4bv0B 18%
[Model]

4buo: HIGH RESOLUTION STRUCTURE OF THERMOSTABLE AGONIST-BOUND NEUROTENSIN RECEPTOR 1 MUTANT WITHOUT LYSOZYME FUSION
Solved by: X-RAY, Resolution: 2.75A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

41-330 4buoA 19%
[Model]
41-332 4buoB 18%
[Model]

1f88: CRYSTAL STRUCTURE OF BOVINE RHODOPSIN
Solved by: X-RAY, Resolution: 2.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

39-336 1f88A 15%
[Model]
40-334 1f88B 16%
[Model]

3oax: CRYSTAL STRUCTURE OF BOVINE RHODOPSIN WITH BETA-IONONE
Solved by: X-RAY, Resolution: 2.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-359 3oaxA 16%
[Model]
40-359 3oaxB 16%
[Model]

2g87: CRYSTALLOGRAPHIC MODEL OF BATHORHODOPSIN
Solved by: X-RAY, Resolution: 2.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-359 2g87A 16%
[Model]
40-359 2g87B 16%
[Model]

4zwj: CRYSTAL STRUCTURE OF RHODOPSIN BOUND TO ARRESTIN BY FEMTOSLASER
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

42-334 4zwjC 16%
[Model]
41-334 4zwjD 16%
[Model]
41-334 4zwjA 16%
[Model]
40-334 4zwjB 16%
[Model]

1u19: CRYSTAL STRUCTURE OF BOVINE RHODOPSIN AT 2.2 ANGSTROMS RESOLUTION
Solved by: X-RAY, Resolution: 2.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-359 1u19B 16%
[Model]
40-359 1u19A 16%
[Model]

2ped: CRYSTALLOGRAPHIC MODEL OF 9-CIS-RHODOPSIN
Solved by: X-RAY, Resolution: 2.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-359 2pedA 16%
[Model]
40-359 2pedB 16%
[Model]

2hpy: CRYSTALLOGRAPHIC MODEL OF LUMIRHODOPSIN
Solved by: X-RAY, Resolution: 2.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-359 2hpyB 16%
[Model]
40-359 2hpyA 16%
[Model]

2i37: CRYSTAL STRUCTURE OF A PHOTOACTIVATED RHODOPSIN
Solved by: X-RAY, Resolution: 4.15A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

39-334 2i37A 16%
[Model]
40-334 2i37B 15%
[Model]
39-337 2i37C 15%
[Model]

3c9l: STRUCTURE OF GROUND-STATE BOVINE RHODOSPIN IN A HEXAGONAL CRYSTAL FORM
Solved by: X-RAY, Resolution: 3.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

39-335 3c9lA 15%
[Model]

2i36: CRYSTAL STRUCTURE OF TRIGONAL CRYSTAL FORM OF GROUND-STATERHODOPSIN
Solved by: X-RAY, Resolution: 4.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 2i36A 15%
[Model]
40-332 2i36B 15%
[Model]
40-331 2i36C 15%
[Model]

1l9h: CRYSTAL STRUCTURE OF BOVINE RHODOPSIN AT 2.6 ANGSTROMS RESOLUTION
Solved by: X-RAY, Resolution: 2.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

15-334 1l9hA 14%
[Model]
40-334 1l9hB 15%
[Model]

4j4q: CRYSTAL STRUCTURE OF ACTIVE CONFORMATION OF GPCR OPSIN STAOCTYLGLUCOSIDE
Solved by: X-RAY, Resolution: 4.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 4j4qA 15%
[Model]

1jfp: STRUCTURE OF BOVINE RHODOPSIN (DARK ADAPTED)
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-357 1jfpA 15%
[Model]

2i35: CRYSTAL STRUCTURE OF RHOMBOHEDRAL CRYSTAL FORM OF GROUND- STATE RHODOPSIN
Solved by: X-RAY, Resolution: 3.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

39-335 2i35A 15%
[Model]

3dqb: CRYSTAL STRUCTURE OF THE ACTIVE G-PROTEIN-COUPLED RECEPTOROPSIN IN COMPLEX WITH A C-TERMINAL PEPTIDE DERIVED FROM THE GALPHA SUBUNIT OF TRANSDUCIN
Solved by: X-RAY, Resolution: 4.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 3dqbA 15%
[Model]

3cap: CRYSTAL STRUCTURE OF NATIVE OPSIN: THE G PROTEIN-COUPLED RECEPTOR RHODOPSIN IN ITS LIGAND-FREE STATE
Solved by: X-RAY, Resolution: 4.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 3capB 15%
[Model]
40-334 3capA 15%
[Model]

3c9m: STRUCTURE OF A MUTANT BOVINE RHODOPSIN IN HEXAGONAL CRYSTAFORM
Solved by: X-RAY, Resolution: 3.40A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 3c9mA 15%
[Model]

4a4m: CRYSTAL STRUCTURE OF THE LIGHT-ACTIVATED CONSTITUTIVELY ACN2C,M257Y,D282C RHODOPSIN MUTANT IN COMPLEX WITH A PEPTIDRESEMBLING THE C-TERMINUS OF THE GALPHA-PROTEIN SUBUNIT (
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 4a4mA 15%
[Model]

2x72: CRYSTAL STRUCTURE OF THE CONSTITUTIVELY ACTIVE E113Q,N2C, RHODOPSIN MUTANT WITH BOUND GALPHACT PEPTIDE.
Solved by: X-RAY, Resolution: 3.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 2x72A 15%
[Model]

1ln6: STRUCTURE OF BOVINE RHODOPSIN (METARHODOPSIN II)
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-357 1ln6A 15%
[Model]

3pqr: CRYSTAL STRUCTURE OF METARHODOPSIN II IN COMPLEX WITH A C-PEPTIDE DERIVED FROM THE GALPHA SUBUNIT OF TRANSDUCIN
Solved by: X-RAY, Resolution: 4.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 3pqrA 15%
[Model]

3pxo: CRYSTAL STRUCTURE OF METARHODOPSIN II
Solved by: X-RAY, Resolution: 4.10A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 3pxoA 15%
[Model]

4pxf: CRYSTAL STRUCTURE OF THE ACTIVE G-PROTEIN-COUPLED RECEPTORCOMPLEX WITH THE FINGER-LOOP PEPTIDE DERIVED FROM THE FULARRESTIN-1
Solved by: X-RAY, Resolution: 2.75A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 4pxfA 15%
[Model]

4bez: NIGHT BLINDNESS CAUSING G90D RHODOPSIN IN THE ACTIVE CONFO
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 4bezA 15%
[Model]

4bey: NIGHT BLINDNESS CAUSING G90D RHODOPSIN IN COMPLEX WITH GACT2 PEPTIDE
Solved by: X-RAY, Resolution: 3.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

40-334 4beyA 15%
[Model]

2j4y: CRYSTAL STRUCTURE OF A RHODOPSIN STABILIZING MUTANT EXPRESSED IN MAMMALIAN CELLS
Solved by: X-RAY, Resolution: 3.4A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

39-334 2j4yA 15%
[Model]
39-334 2j4yB 15%
[Model]

1hzx: CRYSTAL STRUCTURE OF BOVINE RHODOPSIN
Solved by: X-RAY, Resolution: 2.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

15-334 1hzxA 14%
[Model]
40-334 1hzxB 15%
[Model]

1gzm: STRUCTURE OF BOVINE RHODOPSIN IN A TRIGONAL CRYSTAL FORM
Solved by: X-RAY, Resolution: 3.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

39-335 1gzmA 15%
[Model]
39-335 1gzmB 15%
[Model]

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.




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