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Model Overview

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593

Sequence

UniProt

O95198

Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING

O95198: 9606.ENSP0000022

Domain

Link to: [ InterPro ]

	BTB
	Kelch_1
	Kelch_1
	Kelch_1
	Kelch_1
	Kelch_1
	Kelch_1
	BACK

Model 3D Structure

	Model information:
	Modelled residue range:	306 to 591
	Based on template:	[ 2xn4 ]
	Sequence Identity [%]:	99%
	Model date:	2013-04-19
	Revision date:	2013-04-01

Quaternary structure information:	[details]
Template (2xn4): MONOMER Model: MONOMER

Ligand information:	[details]
Ligands in the template: EDO: 1, NA: 1, SO4: 3. 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     PKLMVVVGGQ APKAIRSVEC YDFKEERWHQ VAELPSRRCR AGMVYMAGLV
2xn4_2#3  306   pklmvvvggq apkairsvec ydfkeerwhq vaelpsrrcr agmvymaglv
                                                                      
TARGET          ssssssssss s sss ssss ss    ssss s           sssss  ss
2xn4_2#3        ssssssssss s sss ssss ss    ssss s           sssss  ss


TARGET    51    FAVGGFNGSL RVRTVDSYDP VKDQWTSVAN MRDRRSTLGA AVLNGLLYAV
2xn4_2#3  356   favggfngsl rvrtvdsydp vkdqwtsvan mrdrrstlga avlngllyav
                                                                      
TARGET          sssssss  s ss ssssss     sssss           ss sss  sssss
2xn4_2#3        sssssss  s ss ssssss     sssss           ss sss  sssss


TARGET    101   GGFDGSTGLS SVEAYNIKSN EWFHVAPMNT RRSSVGVGVV GGLLYAVGGY
2xn4_2#3  406   ggfdgstgls sveayniksn ewfhvapmnt rrssvgvgvv ggllyavggy
                                                                      
TARGET          ssss  sss  ssssss     sssss           sssss   ssssssss
2xn4_2#3        ssss  sss  ssssss     sssss           sssss   ssssssss


TARGET    151   DGASRQCLST VECYNATTNE WTYIAEMSTR RSGAGVGVLN NLLYAVGGHD
2xn4_2#3  456   dvasrqclst vecynattne wtyiaemstr rsgagvgvln nllyavgghd
                                                                      
TARGET          ss  ssss s sssss    s ssss           sssss   ssssss   
2xn4_2#3        ss  ssss s sssss    s ssss           sssss   ssssss   


TARGET    201   GPLVRKSVEV YDPTTNAWRQ VADMNMCRRN AGVCAVNGLL YVVGGDDGSC
2xn4_2#3  506   gplvrksvev ydpttnawrq vadmnmcrrn agvcavngll yvvggddgsc
                                                                      
TARGET                ssss ss    ssss s           sssss  ss sssssss  s
2xn4_2#3              ssss ss    ssss s           sssss  ss sssssss  s


TARGET    251   NLASVEYYNP TTDKWTVVSS CMSTGRSYAG VTVIDK               
2xn4_2#3  556   nlasveyynp ttdkwtvvss cmstgrsyag vtvidk-              
                                                                      
TARGET          ss ssssss     sssss            s ssssss               
2xn4_2#3        ss ssssss     sssss            s ssssss

Quality

[ start new quality assessment in Workspace ]

Ligand Modelling Log

Template's ligands section 
Ligands in the template: EDO: 1, NA: 1, SO4: 3. 
Ligands in the template that will be assessed: NA1. 
Model's ligands section 
NA1 
The ligand binds less than 3 template residues. 
Given the properties calculated previously, the ligand z.NA1 will not be included in the final model. 
NA1: conservation:False, RMSD:False, included: False 
 
No ligands were included in the model.

Oligomer Modelling Log

Quaternary Structure Annotation of the Template 
 2xn4 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: 2xn4.pdb2.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 Analysis of evolutionary and family specific aspects revealed conservation of the oligomeric structure 
 Hence, the oligomeric structures of the target and the template can be assumed to be similar (=MONOMER) 
 The corresponding reliability score is 0.658 (>0.5 indicates similarity) 
 Model was succesfully built as MONOMER.

Template Selection

 - Start SMR-Pipeline for:0bc7572906f9561ddcb9b31d4c1fcbac on BC2-cluster at Fri Apr 19 21:20:57
2013 


 - Analyze BLAST summary ... 
 - Blast template search was successfull, number of templates selected for modeling:  2
 - But still uncovered regions of the target sequence detected, go for: HHSEARCH

 - No A3m found

 - Run HHSearch to detect more templates...
 - Generate new template library
 - Run template selection against modfied template library 
 - Summarize templates: 
 - Skip Template HHsearch issue
 - No template with B found
 - No template with D found
 - No template with A found
 - No template with A found
 - No template with B found
 - No template with A found
 - No template with P found
 - No template with P found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with D found
 - No template with B found
 - No template with B found
 - No template with A found
 - No template with M found
 - No template with N found
 - No template with O found
 - No template with P found
 - No template with I found
 - No template with J found
 - No template with K found
 - No template with L found
 - No template with B found
 - No template with D found
 - No template with B found
 - No template with C found
 - No template with D found
 - No template with B found
 - No template with D found
 - No template with B found
 - No template with B found
 - No template with B found
 - No template with B found
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:4): model based on new templates
 - Send 4 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                          ***************************************
 - building model based on 2xn4B (306-591) was successful 
 -      **************************
 - building model based on 4hxiA (38-229) was successful 
 -                                     *******************************
 - building model based on 2vpjA (267-494) was successful 
 -       *********************************
 - building model based on 3i3nB (47-287) 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:0bc7572906f9561ddcb9b31d4c1fcbac on BC2-cluster at Fri Apr 19 21:24:55
2013

Template Search

[ start new template identification in Workspace ]

Template Description

Match

Chain

SeqId

2xn4: CRYSTAL STRUCTURE OF THE KELCH DOMAIN OF HUMAN KLHL2 (MAYV
Solved by: X-RAY, Resolution: 1.99A, Identified by BLAST
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	306-591	2xn4A	100%	>target PKLMVVVGGQAPKAIRSVECYDFKEERWHQVAELPSRRCRAGMVYMAGLVFAVGGFNGSLRVRTVDSYDPVKDQWTSVANMRDRRSTLGAAVLNGLLYAVGGFDGSTGLSSVEAYNIKSNEWFHVAPMNTRRSSVGVGVVGGLLYAVGGYDGASRQCLSTVECYNATTNEWTYIAEMSTRRSGAGVGVLNNLLYAVGGHDGPLVRKSVEVYDPTTNAWRQVADMNMCRRNAGVCAVNGLLYVVGGDDGSCNLASVEYYNPTTDKWTVVSSCMSTGRSYAGVTVIDK >2xn4A PKLMVVVGGQAPKAIRSVECYDFKEERWHQVAELPSRRCRAGMVYMAGLVFAVGGFNGSLRVRTVDSYDPVKDQWTSVANMRDRRSTLGAAVLNGLLYAVGGFDGSTGLSSVEAYNIKSNEWFHVAPMNTRRSSVGVGVVGGLLYAVGGYDVASRQCLSTVECYNATTNEWTYIAEMSTRRSGAGVGVLNNLLYAVGGHDGPLVRKSVEVYDPTTNAWRQVADMNMCRRNAGVCAVNGLLYVVGGDDGSCNLASVEYYNPTTDKWTVVSSCMSTGRSYAGVTVIDK [Model]
	306-591	2xn4B	100%	>target PKLMVVVGGQAPKAIRSVECYDFKEERWHQVAELPSRRCRAGMVYMAGLVFAVGGFNGSLRVRTVDSYDPVKDQWTSVANMRDRRSTLGAAVLNGLLYAVGGFDGSTGLSSVEAYNIKSNEWFHVAPMNTRRSSVGVGVVGGLLYAVGGYDGASRQCLSTVECYNATTNEWTYIAEMSTRRSGAGVGVLNNLLYAVGGHDGPLVRKSVEVYDPTTNAWRQVADMNMCRRNAGVCAVNGLLYVVGGDDGSCNLASVEYYNPTTDKWTVVSSCMSTGRSYAGVTVIDK >2xn4B PKLMVVVGGQAPKAIRSVECYDFKEERWHQVAELPSRRCRAGMVYMAGLVFAVGGFNGSLRVRTVDSYDPVKDQWTSVANMRDRRSTLGAAVLNGLLYAVGGFDGSTGLSSVEAYNIKSNEWFHVAPMNTRRSSVGVGVVGGLLYAVGGYDVASRQCLSTVECYNATTNEWTYIAEMSTRRSGAGVGVLNNLLYAVGGHDGPLVRKSVEVYDPTTNAWRQVADMNMCRRNAGVCAVNGLLYVVGGDDGSCNLASVEYYNPTTDKWTVVSSCMSTGRSYAGVTVIDK [Model]

1nex: CRYSTAL STRUCTURE OF SCSKP1-SCCDC4-CPD PEPTIDE COMPLEX
Solved by: X-RAY, Resolution: 2.70A, Identified by HHSEARCH
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	57-154	1nexA	12%	>target -DVTIVA-EDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYTA-------------EIQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLH-------------------------- >1nexA SNVVLVSGEGERFTVDKKIA-ERSLLLKNYL---------IVMPVPNVRSSVLQKVIEWAEHHRDSNFPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIR [Model]
	58-154	1nexC	12%	>target --VTIVA-EDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYTAE-------------IQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLH--------------------------- >1nexC SNVVLVSGEGERFTVDKKIA-ERSLLLKNYLI---------VMPVPNVRSSVLQKVIEWAEHHRDSNFPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRR [Model]

3mks: CRYSTAL STRUCTURE OF YEAST CDC4/SKP1 IN COMPLEX WITH AN ALINHIBITOR SCF-I2
Solved by: X-RAY, Resolution: 2.60A, Identified by HHSEARCH
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	57-154	3mksC	12%	>target -DVTIVA-EDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYTAE--------------IQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLH--------------------------- >3mksC SNVVLVSGEGERFTVDKKIA-ERSLLLKNYLN--------IVMPVPNVRSSVLQKVIEWAEHHRDSNFPPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRR [Model]
	57-154	3mksA	11%	>target -DVTIVA-EDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYTAE------------------IQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLH-------------------------- >3mksA SNVVLVSGEGERFTVDKKIA-ERSLLLKNY---------EIVMPVPNVRSSVLQKVIEWAEHHRDSNFPDKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIR [Model]

3v7d: CRYSTAL STRUCTURE OF SCSKP1-SCCDC4-PSIC1 PEPTIDE COMPLEX
Solved by: X-RAY, Resolution: 2.31A, Identified by HHSEARCH
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	58-154	3v7dA	11%	>target ---VTIVA-EDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYT-A--------E--------IQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLH----------------------------- >3v7dA TSNVVLVSGEGERFTVDKKIAE-RSLLLKNYLN-------DIVMPVPNVRSSVLQKVIEWAEHHRDSNFPDSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRREN [Model]
	57-154	3v7dC	11%	>target -DVTIVA-EDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYTAE-----------------IQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLH----------------------------- >3v7dC SNVVLVSGEGERFTVDKKIA-ERSLLLKNYLND------EIVMPVPNVRSSVLQKVIEWAEHHRDSNFPKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRREN [Model]

4hxi: CRYSTAL STRUCTURE OF KLHL3/CUL3 COMPLEX
Solved by: X-RAY, Resolution: 3.51A, Identified by HHSEARCH
[ SMTL ] [ RCSB ] [ PDBe ] [ SCOP ] [ CATH ]

	152-268	4hxiA	7%	>target ----------------------------------------------------------------------------------QLHPVNCLGIRAFADMHACTDLLNKANTYAEQHFADVVLSEEFLNLGIEQVCSLISSDKLTISSEEKVFEAVIAWVNHDKDVRQEFMARLMEHVRLPLLPREYLVQRVEEEALVKNS-------------- >4hxiA HMGKAFKVMNELRSKQLLCDVMIVAEDVEIEAHRVVLAACSPYFCAMFTGDMSESAAAAIEIKDVDGQTLSKLIDYIYTAEIEVTEENVQVLLPAASLLQLMDVRQNCCDFLQSQL------------HPTNCLGIRAFADV--HTCTDLLQQANAYAEQHF-------PEVMLGEEFLSLSLDQVCSLISSDKLTVSSEEKVFEAVISWINY [Model]
	38-229	4hxiA	77%	>target HMKKAFKVMNELRSQNLLCDVTIVAEDMEISAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLIDYVYTAEIQVTEENVQVLLPAAGLLQLQDVKKTCCEFLESQLHPVNCLGIRAFADMHACTDLLNKANTYAEQHFADVVLSEEFLNLGIEQVCSLISSDKLTISSEEKVFEAVIAWVNH >4hxiA HMGKAFKVMNELRSKQLLCDVMIVAEDVEIEAHRVVLAACSPYFCAMFTGDMSESAAAAIEIKDVDGQTLSKLIDYIYTAEIEVTEENVQVLLPAASLLQLMDVRQNCCDFLQSQLHPTNCLGIRAFADVHTCTDLLQQANAYAEQHFPEVMLGEEFLSLSLDQVCSLISSDKLTVSSEEKVFEAVISWINY [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.