SWISS-MODEL Repository - Model Details

Model Overview
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1
417

Sequence
UniProt Q3TNH5 Protein FAM172A
Mus musculus (Mouse).
Database: Swiss-Prot (Reviewed) manually annotated and reviewed

Domain
Link to: [ InterPro ]
Arb2

Model 3D Structure
Model information:
Modelled residue range: 265 to 326
Based on template: [ 4c6h ]  
Sequence Identity [%]: 19%
Model date: 2014-07-17
Revision date: 2014-07-15

Quaternary structure information: [details]
Template (4c6h): MONOMER
Model built: SINGLE CHAIN

Ligand information: [details]
Ligands in the template: HE2: 1, PGE: 1.
Ligands in the model: none.
Template Links: [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  
display model: in [ AstexViewer ]
download model: as [ pdb ] - as [ Deepview project ]

Alignment

                                                       
4c6hA     2     ttsfrdkkkf atvhgkqmay ieegtgdpiv flhgnpmssy lwrnimphla
                                                                      
                                                       
4c6hA               hh  ss sss  sssss sss   ssss ss       h    hhhhh  


TARGET    1                                  NGS PEEHAVYVWD HFIAQ-AAAE
4c6hA     52    gkgrliapdl igmgdsdkld nsgpd--syt faehctyl-f alleqlgvte
                                                                      
TARGET                                           hhhhhhhh     hhh     
4c6hA              ssssss                        hhhhhhhh h hhhhhh    


TARGET    23    NVFFVAHSYG GLAFVELMIQ READVKSKVT AVALTDSVHN  ---------
4c6hA     99    nvtlvihdwg sglgfhwaht hs----davk giafmeaive treswdafpe
                                                                      
TARGET             sss  hh hhhhhhhhhh            sssss                
4c6hA             sssss hh hhhhhhhhhh            sssss                


TARGET          ---------- ---------- ---------- ---------- ----------
4c6hA     145   raremfqalr spageemvle knlfvealvp gsilrdltee emneyrrpfa
                                                                      
TARGET                                                                
4c6hA             hhhhhhh    hhhhhhhh    hhhhhhh h       hh hhhhhhh   


TARGET          ---------- ---------- ---------- ---------- ----------
4c6hA     195   nagedrrptl tfprqvpieg qpkdvtelvd ayvdwlgqts ipklfinadp
                                                                      
TARGET                                                                
4c6hA                  hhh hhhh         hhhhhhhh hhhhhh      sssssssss


TARGET          ---------- ---------- ---------- ---------- --------  
4c6hA     245   gvlitgevrd rvrswpnlte vtvaglhfiq edspdeigaa vrdwhasl  
                                                                      
TARGET                                                                
4c6hA           s     hhhh hhh   ssss sssss    h h   hhhhhh hhhhhh    



Quality


Template's ligands section
Ligands in the template: HE2: 1, PGE: 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
4c6h 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: 4c6h.pdb1.gz

Quaternary Structure Modelling of the Target Protein
The target and template sequences are too diverse (seqid: 19.048) 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:d977c764758a1ff5036bb689847dc536 on BC2-cluster at Thu Jul 17 00:28:59
2014 


 - 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
 - No template with B found
 - Warning: Oligomer Prediction was not successfull!

 - 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

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                                    ************
 - building model based on 4c6hA (265-326) was successful 
 -                        ****************************************
 - building model based on 3qitA (118-327) 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:d977c764758a1ff5036bb689847dc536 on BC2-cluster at Thu Jul 17 00:30:24
2014 




Template Description
Match Chain SeqId

4brz: HALOALKANE DEHALOGENASE
Solved by: X-RAY, Resolution: 1.67A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

264-325 4brzB 19%
[Model]
264-325 4brzA 19%
[Model]

4c6h: HALOALKANE DEHALOGENASE WITH 1-HEXANOL
Solved by: X-RAY, Resolution: 1.61A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

265-326 4c6hA 19%
[Model]

2o2i: CRYSTAL STRUCTURE OF HALOALKANE DEHALOGENASE RV2579 FROM MYCOBACTERIUM TUBERCULOSIS COMPLEXED WITH 1,3-PROPANDIOL
Solved by: X-RAY, Resolution: 1.50A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

266-326 2o2iA 16%
[Model]

2o2h: CRYSTAL STRUCTURE OF HALOALKANE DEHALOGENASE RV2579 FROM MYCOBACTERIUM TUBERCULOSIS COMPLEXED WITH 1,2- DICHLOROETHANE
Solved by: X-RAY, Resolution: 1.60A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

265-325 2o2hA 16%
[Model]

2qvb: CRYSTAL STRUCTURE OF HALOALKANE DEHALOGENASE RV2579 FROM MYCOBACTERIUM TUBERCULOSIS
Solved by: X-RAY, Resolution: 1.19A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

266-324 2qvbA 15%
[Model]
266-325 2qvbB 15%
[Model]

3qit: THIOESTERASE DOMAIN FROM CURACIN BIOSYNTHETIC PATHWAY
Solved by: X-RAY, Resolution: 1.68A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

267-329 3qitB 16%
[Model]
118-329 3qitD 8%
[Model]
118-328 3qitC 9%
[Model]
118-327 3qitA 10%
[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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