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Model Overview

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223

Sequence

UniProt

Q99LZ3

Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING

Q99LZ3: 10090.ENSMUSP000

Domain

Link to: [ InterPro ]

Sld5

Model 3D Structure

	Model information:
	Modelled residue range:	21 to 212
	Based on template:	[ 2eho ]
	Sequence Identity [%]:	88%
	Model date:	2013-02-22
	Revision date:	2013-01-30

Quaternary structure information:	[details]
Template (2eho): HETERO TETRAMER Model built :SINGLE CHAIN

Ligand information:	[details]
Ligands in the template: SO4: 2. 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       LTPAELIE KLEQAWMNEK FAPELLESKA EIVECVMEQL EHMEENLRRA
2ehoI     21      ltpaelie rleqawxnek fapelleskp eivecvxeql ehxeenlrra
                                                                      
TARGET              hhhhhh hhhhhhhhhh            hhhhhhhhhh hhhhh     
2ehoI               hhh    hhhhhhhhhh            hhhhhhhhhh hhhhh     


TARGET    49    KKGDLKVSIH RMEMERIRYV LSSYLRCRLM KIEKFFPHIL EKEKVRSEGE
2ehoI     69    kredlkvsih qxexeriryv lssylrcrlx kiekffphvl ekektrpege
                                                                      
TARGET             hhhhhhh hhhhhhhhhh hhhhhhhhhh hhh   hhhh hhhhh     
2ehoI              hhhhhhh hhhhhhhhhh hhhhhhhhhh hhh   hhhh hhhh      


TARGET    99    PSSLSPEEFV FAKEYMDHTE THFKNVALKH MPPNLQKVDL LRAVPKPDLD
2ehoI     119   psslspeela farefxante sylknvalkh xppnlqkvdl fravpkpdld
                                                                      
TARGET               hhhhh hhhhhhhhhh hhhhhh              h hhh       
2ehoI                hhhhh hhhhhhhhhh hhhhh               h hhh       


TARGET    149   SYVFLRVKER QENILVEPEA DEQRDYVIDL EVGSQHLIRY KTIA      
2ehoI     169   syvflrvrer qenilvepdt deqrdyvidl ekgsqhliry ktia-     
                                                                      
TARGET          sssssss     sssss          sssss    sssssss           
2ehoI           sssssss     sssss          sssss    sssssss

Quality

[ start new quality assessment in Workspace ]

Ligand Modelling Log

Template's ligands section 
Ligands in the template: SO4: 2. 
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.

Oligomer Modelling Log

Quaternary Structure Annotation of the Template
2eho is annotated as HETERO TETRAMER
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: 2eho.pdb3.gz

Quaternary Structure Modelling of the Target Protein
2eho_3

Template Selection

 - Start SMR-Pipeline for:eb57ce9b7769972b31bf5b1b50d2ead1 on BC2-cluster at Fri Feb 22 16:13:11
2013 


 - Analyze BLAST summary ... 
 - Blast template search was successfull, number of templates selected for modeling:  1 go for
modeling ...

FATAL - No A3m found

 - No template with J found
 - No template with K found
 - No template with L found
 - No template with F found
 - No template with G found
 - No template with H found
 - No template with B found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with G found
 - No template with A found
 - No template with B found
 - No template with C found
 - No template with A found
 - No template with C found
 - No template with D found
 - No template with E found
 - No template with G found
 - No template with H 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 2ehoI (21-212) 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:eb57ce9b7769972b31bf5b1b50d2ead1 on BC2-cluster at Fri Feb 22 16:13:47
2013

Template Search

[ start new template identification in Workspace ]

Template Description

Match

Chain

SeqId

2q9q: THE CRYSTAL STRUCTURE OF FULL LENGTH HUMAN GINS COMPLEX
Solved by: X-RAY, Resolution: 2.36A, Identified by BLAST
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	21-222	2q9qB	87%	>target LTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIAPLVASGAVQL >2q9qB LTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEENL------DLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLRVRERQENILVEPDTDEQRDYVIDLEKGSQHLIRYKTIAPLVASGAVQL [Model]
	21-222	2q9qF	87%	>target LTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIAPLVASGAVQL >2q9qF LTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEENL------DLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLRVRERQENILVEPDTDEQRDYVIDLEKGSQHLIRYKTIAPLVASGAVQL [Model]

2e9x: THE CRYSTAL STRUCTURE OF HUMAN GINS CORE COMPLEX
Solved by: X-RAY, Resolution: 2.30A, Identified by BLAST
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	21-223	2e9xD	87%	>target LTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIAPLVASGAVQLI >2e9xD LTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEEN------EDLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLRVRERQENILVEPDTDEQRDYVIDLEKGSQHLIRYKTIAPLVASGAVQLI [Model]
	21-223	2e9xH	87%	>target LTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIAPLVASGAVQLI >2e9xH LTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEEN------EDLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLRVRERQENILVEPDTDEQRDYVIDLEKGSQHLIRYKTIAPLVASGAVQLI [Model]

2eho: CRYSTAL STRUCTURE OF HUMAN GINS COMPLEX
Solved by: X-RAY, Resolution: 3.00A, Identified by BLAST
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

21-212	2ehoA	75%	>target LTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIA >2ehoA LTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEENLRE----DLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLR---------------------------SQHLIRYKTIA [Model]
20-213	2ehoE	87%	>target VLTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIAP >2ehoE VLTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEENLRE----DLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLRVRERQENILVEPDTDEQRDYVIDLEKGSQHLIRYKTIAP [Model]
21-212	2ehoI	89%	>target LTPAELIEKLEQAWMNEKFAPELLESKAEIVECVMEQLEHMEENLRRAKKGDLKVSIHRMEMERIRYVLSSYLRCRLMKIEKFFPHILEKEKVRSEGEPSSLSPEEFVFAKEYMDHTETHFKNVALKHMPPNLQKVDLLRAVPKPDLDSYVFLRVKERQENILVEPEADEQRDYVIDLEVGSQHLIRYKTIA >2ehoI LTPAELIERLEQAWMNEKFAPELLESKPEIVECVMEQLEHMEENLRRAKREDLKVSIHQMEMERIRYVLSSYLRCRLMKIEKFFPHVLEKEKTRPEGEPSSLSPEELAFAREFMANTESYLKNVALKHMPPNLQKVDLFRAVPKPDLDSYVFLRVRERQENILVEPDTDEQRDYVIDLEKGSQHLIRYKTIA [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.