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Model Overview

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747

Sequence

UniProt

Q61418

Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain

Link to: [ InterPro ]

	CBS
	CBS
	Voltage_CLC

Model 3D Structure

	Model information:
	Modelled residue range:	579 to 740
	Based on template:	[ 2j9l ]
	Sequence Identity [%]:	73%
	Model date:	2013-02-15
	Revision date:	2013-01-30

Quaternary structure information:	[details]
Template (2j9l): HEXAMER Model built: SINGLE CHAIN

Ligand information:	[details]
Ligands in the template: ATP: 1, CL: 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 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 ]

Alignment


TARGET    1       HRTLATDV MRPRRGEPPL SVLTQDSMTV EDVETLIKET DYNGFPVLVS
2j9lD     578     hktlamdv mkprrndpll tvltqdsmtv edvetiiset tysgfpvvvs
                                                                      
TARGET                 hhh              sss  sss hhhhhhhhh    ssssssss
2j9lD                  hhh              sss  sss hhhhhhhhh    ssssssss


TARGET    49    RDSERLIGFA QRRELILAIK NARQRQEGIV SNSIMYFTEE PPELPANSPH
2j9lD     626   resqrlvgfv lrrdliisie narkkqdgvv stsiiyfteh spplppytpp
                                                                      
TARGET             sssssss sshhhhhhhh hhh          ssss               
2j9lD              sssssss sshhhhhhhh hhh          ssss               


TARGET    99    PLKLRRILNL SPFTVTDHTP METVVDIFRK LGLRQCLVTR SGRLLGIITK
2j9lD     676   tlklrnildl spftvtdltp meivvdifrk lglrqclvth ngrllgiitk
                                                                      
TARGET           sss         sssss    hhhhhhhhhh h  sssssss   ssssssss
2j9lD            sss         sssss    hhhhhhhhhh h  sssssss   ssssssss


TARGET    149   KDVLRHMAQM ANQD ----- ---                             
2j9lD     726   kdvlkhiaqm anqdlfnefl evl                             
                                                                      
TARGET          hhhhhhhhhh h                                          
2j9lD           hhhhhhhhhh h     hhhh hh

Quality

[ start new quality assessment in Workspace ]

Ligand Modelling Log

Template's ligands section 
Ligands in the template: ATP: 1, CL: 1. 
Ligands in the template that will be assessed: ATP1753. 
Model's ligands section 
ATP1753 
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 D.ATP1753 will not be included in the model. 
ATP1753: conservation:False, RMSD:False, included: False 
 
No ligands were included in the model.

Oligomer Modelling Log

Quaternary Structure Annotation of the Template 
 2j9l is annotated as HEXAMER 
 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: 2j9l.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 (=HEXAMER) 
 The target structure was calculated as SINGLE CHAIN 
 The corresponding reliability score is 0.032 (>0.5 indicates similarity) 
 To build the complex the following chains of the complex has been additionally identified: 2j9lC 2j9lB 2j9lE 2j9lA 2j9lF

Template Selection

 - Start SMR-Pipeline for:96a4cb29212e650e3cb9d3d2941673fd on BC2-cluster at Fri Feb 15 21:43:44
2013 


 - Analyze BLAST summary ... 
 - Blast template search was successfull, number of templates selected for modeling:  1
 - 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
 - No template with J found
 - No template with O found
 - No template with I found
 - No template with L found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with J found
 - No template with O found
 - No template with I found
 - No template with L found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F 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 2j9lD (579-740) was successful 
 -                 ********************
 - building model based on 3nd0B (153-338) was successful 
 -                ***************************************************************
 - building model based on 3orgC (140-729) was not successful go to next best template
 -                ***************************************************************
 - building model based on 3orgB (140-729) was not successful go to next best template
 -                ***************************************************************
 - building model based on 3orgA (140-729) was not successful go to next best template
 -                ***************************************************************
 - building model based on 3orgD (140-729) was not successful go to next best template
 -               **********************************************
 - building model based on 1kplD (135-559) 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:96a4cb29212e650e3cb9d3d2941673fd on BC2-cluster at Fri Feb 15 22:18:29
2013

Template Search

[ start new template identification in Workspace ]

Template Description

Match

Chain

SeqId

2ja3: CYTOPLASMIC DOMAIN OF THE HUMAN CHLORIDE TRANSPORTER CLC-5IN COMPLEX WITH ADP
Solved by: X-RAY, Resolution: 3.05A, Identified by BLAST
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

579-739	2ja3B	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQ---------- >2ja3B HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANQLFNEFLEVLF [Model]
579-738	2ja3A	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMAN------- >2ja3A HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANFNEFLEV [Model]
579-740	2ja3D	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQD--------- >2ja3D HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANQDLFNEFLEVL [Model]
579-739	2ja3C	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQ----------- >2ja3C HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANQLFNEFLEVLFQ [Model]
579-738	2ja3E	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMAN------- >2ja3E HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANFNEFLEV [Model]
579-747	2ja3F	69%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQDPESIMFN--- >2ja3F HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARK---GVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQM-------ILFNEFL [Model]

2j9l: CYTOPLASMIC DOMAIN OF THE HUMAN CHLORIDE TRANSPORTER CLC-5IN COMPLEX WITH ATP
Solved by: X-RAY, Resolution: 2.30A, Identified by BLAST
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

579-739	2j9lC	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQ----------- >2j9lC HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANQLFNEFLEVLFQ [Model]
579-739	2j9lB	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQ---------- >2j9lB HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANQLFNEFLEVLF [Model]
579-738	2j9lE	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMAN------- >2j9lE HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANFNEFLEV [Model]
579-738	2j9lA	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMAN------- >2j9lA HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANFNEFLEV [Model]
579-747	2j9lF	69%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQDPESIMFN--- >2j9lF HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARK---GVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQM-------ILFNEFL [Model]
579-740	2j9lD	73%	>target HRTLATDVMRPRRGEPPLSVLTQDSMTVEDVETLIKETDYNGFPVLVSRDSERLIGFAQRRELILAIKNARQRQEGIVSNSIMYFTEEPPELPANSPHPLKLRRILNLSPFTVTDHTPMETVVDIFRKLGLRQCLVTRSGRLLGIITKKDVLRHMAQMANQD--------- >2j9lD HKTLAMDVMKPRRNDPLLTVLTQDSMTVEDVETIISETTYSGFPVVVSRESQRLVGFVLRRDLIISIENARKKQDGVVSTSIIYFTEHSPPLPPYTPPTLKLRNILDLSPFTVTDLTPMEIVVDIFRKLGLRQCLVTHNGRLLGIITKKDVLKHIAQMANQDLFNEFLEVL [Model]

Downloads

download model.tgz

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.