SWISS-MODEL Repository - Model Details

Model Overview
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1
597

Sequence
UniProt Q11181
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q11181: 6239.C05D10.4b

Domain
Link to: [ InterPro ]
SAM_2

Model 3D Structure
Model information:
Modelled residue range: 397 to 465
Based on template: [ 3bs5 ]  
Sequence Identity [%]: 21%
Model date: 2015-05-30
Revision date: 2015-05-28

Quaternary structure information: [details]
Template (3bs5): HETERO DIMER
Model built :SINGLE CHAIN

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

Alignment

TARGET    1       KTVKEWSL DDVLLWLQSA Q--MDDVAGL LIGYDLRGED LLQWNDQTLA
3bs5B     111     epvskwsp sqvvdwxkgl ddclqqyikn ferekisgdq llrithqele
                                                                      
TARGET                   h hhhhhhhhh        hhhh hhhh   hhh h   hhhhhh
3bs5B                    h hhhhhhhh     hhhhhhhh hhhh   hhh h   hhhhhh


TARGET    47    QLGVSNPEIR KKLLDDLSKI IEN ---                         
3bs5B     159   dlgvsrighq elileavdll calnygl                         
                                                                      
TARGET          hh    hhhh hhhhhhhhhh hhh                             
3bs5B           hh    hhhh hhhhhhhhhh hhhhh                           



Quality


Template's ligands section
Template without ligands.
No ligands were included in the model.


Quaternary Structure Annotation of the Template
3bs5 is annotated as HETERO DIMER
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: 3bs5.pdb1.gz

Quaternary Structure Modelling of the Target Protein
3bs5_1


Template Selection
 - Start SMR-Pipeline for:9cbe302d371d61b5bd50e49e6b5c7412 on BC2-cluster at Sat May 30 09:10:38
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 A found
 - Warning: Oligomer Prediction was not successfull!

 - 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 3bs5B (397-465) 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:9cbe302d371d61b5bd50e49e6b5c7412 on BC2-cluster at Sat May 30 09:11:47
2015 




Template Description
Match Chain SeqId

3bs5: CRYSTAL STRUCTURE OF HCNK2-SAM/DHYP-SAM COMPLEX
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

397-465 3bs5B 21%
[Model]

2ean: SOLUTION STRUCTURE OF THE N-TERMINAL SAM-DOMAIN OF HUMAN KIAA0902 PROTEIN (CONNECTOR ENHANCER OF KINASE SUPPRESSOROF RAS 2)
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

396-470 2eanA 21%
[Model]

2e8o: SOLUTION STRUCTURE OF THE N-TERMINAL SAM-DOMAIN OF THE SAMDOMAIN AND HD DOMAIN CONTAINING PROTEIN 1 (DENDRITIC CELLDERIVED IFNG-INDUCED PROTEIN) (DCIP) (MONOCYTE PROTEIN 5)(MOP-5)
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

398-469 2e8oA 20%
[Model]

2eao: SOLUTION STRUCTURE OF THE C-TERMINAL SAM-DOMAIN OF MOUSE EPHRIN TYPE-B RECEPTOR 1 PRECURSOR (EC 2.7.1.112)
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

393-465 2eaoA 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.




SWISS-MODEL is developed by the Protein Structure Bioinformatics group at the SIB - Swiss Institute of Bioinformatics & the Biozentrum University of Basel. © 2011.