SWISS-MODEL Repository - Model Details

Model Overview
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1
302

Sequence
UniProt Q9V9U4
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q9V9U4: 7227.FBpp0085222

Domain
Link to: [ InterPro ]

Model 3D Structure
Model information:
Modelled residue range: 1 to 284
Based on template: [ 4d4z ]  
Sequence Identity [%]: 59%
Model date: 2015-07-28
Revision date: 2015-07-24

Quaternary structure information: [details]
Template (4d4zB): Unknown
Model: SINGLE CHAIN

Ligand information: [details]
Ligands in the template: FE: 2, GOL: 1, OH: 1.
Ligands in the model: FE: 2
Template Links: [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  
display model: in [ AstexViewer ]
download model: as [ pdb ] - as [ Deepview project ]

Alignment

TARGET    1            MVS QQQIEAIGGV LNNKERPLKE RFRALFTLKN IGGGAAIEAI
4d4zB     65531  gplgs--mvt eqevdaigqt lvdpkqplqa rfralftlrg lggpgaiawi
                                                                      
TARGET                  hh hhhhhhhhhh h      hhh hhhhhhhhhh    hhhhhhh
4d4zB             hhh  hhh hhhhhhhhhh h      hhh hhhhhhhhhh    hhhhhhh


TARGET    44    SKAFDDDSAL LKHELAYCLG QMQDAQALDI LTKVLKDTTQ EPMVRHEAAE
4d4zB     44    sqafdddsal lkhelayclg qmqdaraipm lvdvlqdtrq epmvrheage
                                                                      
TARGET          h       hh hhhhhhhhhh h       hh hhhhhh      hhhhhhhhh
4d4zB           h       hh hhhhhhhhhh h    hhhhh hhhhhh      hhhhhhhhh


TARGET    94    AMGAIGHPDV LPILEEYKQD PVVEVAETCA IALDRVRWLQ SGQKVDDSNP
4d4zB     94    algaigdpev leilkqyssd pvievaetcq lavrrlewlq qhggepaagp
                                                                      
TARGET          hhhh        hhhhhh      hhhhhhhh hhhhhhhhhh hh        
4d4zB           hhhh        hhhhhh      hhhhhhhh hhhhhhhhhh hh        


TARGET    144   YASVDPSPPT AGDKSVTELK AIYLDAQQSL FDRYRAMFSL RNLRTEESVL
4d4zB     144   ylsvdpapp- aeerdvgrlr ealldesrpl feryramfal rnaggeeaal
                                                                      
TARGET                          hhhhh hhhh     h hhhhhhhhhh hh   hhhhh
4d4zB                           hhhhh hhhh     h hhhhhhhhhh hh   hhhhh


TARGET    194   AIAEGLKDSS ALFRHEVAFV LGQLQEPCSI PFLQENLEDR LENEMVRHEC
4d4zB     193   alaeglhcgs alfrhevgyv lgqlqheaav pqlaaalarc tenpmvrhec
                                                                      
TARGET          hhhhh      hhhhhhhhhh hhhh   hhh hhhhhhhh      hhhhhhh
4d4zB           hhhhh      hhhhhhhhhh hhhh   hhh hhhhhhhh      hhhhhhh


TARGET    244   AEALGAIATE DCIQILNRYA EDDKRVVKES CVIALDMCEY E -       
4d4zB     243   aealgaiarp aclaalqaha ddpervvres cevaldmyeh etg       
                                                                      
TARGET          hhhhhhh    hhhhhhh        hhhhhh hhhhhhhhhh h         
4d4zB           hhhhhhh    hhhhhhh        hhhhhh hhhhhhhhhh hh        



Quality


Template's ligands section
Ligands in the template: FE: 2, GOL: 1, OH: 1.
Ligands in the template that will be assessed: FE301, FE302.
Model's ligands section
FE301
All the residues interacting with the ligand are completely conserved between model and template.
The RMSD between the interacting residues of model and template is smaller than 2 Angstrom: 0.070
Given the properties calculated previously, the ligand B.FE301 will be included in the final model.
FE301: conservation:True, RMSD:True, included: True

FE302
All the residues interacting with the ligand are completely conserved between model and template.
The RMSD between the interacting residues of model and template is smaller than 2 Angstrom: 0.060
Given the properties calculated previously, the ligand B.FE302 will be included in the final model.
FE302: conservation:True, RMSD:True, included: True

The new model with the included ligands was saved successfully.


Oligomer Annotation of the Template structure
Sorry, we haven't found any oligomeric annotation for this template.
Either the complex was too large (>60 chains) or the structures was excluded for other reasons.
Please contact help@swissmodel.org for more information!


Template Selection
 - Start SMR-Pipeline for:d271eca168a25ec9c2c9c77892294cd6 on BC2-cluster at Tue Jul 28 13:49:28
2015 


 - Analyze BLAST summary ... 
 - No templates found with BLAST (seqid-cutoff: 60): go to HHSEARCH

 - No A3m found

 - 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 C found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with B found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with E found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with C found
 - No template with F found
 - No template with D found
 - No template with A found
 - No template with A found
 - 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 4d4zB (1-284) 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:d271eca168a25ec9c2c9c77892294cd6 on BC2-cluster at Tue Jul 28 13:50:57
2015 




Template Description
Match Chain SeqId

5a1y: THE STRUCTURE OF THE COPI COAT LINKAGE IV
Solved by: X-RAY, Resolution: 21.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

6-281 5a1yO 8%
[Model]
6-281 5a1yG 8%
[Model]
9-282 5a1yM 12%
[Model]
6-99 5a1yM 11%
[Model]
4-278 5a1yO 10%
[Model]
4-278 5a1yG 10%
[Model]
6-282 5a1yM 11%
[Model]
6-99 5a1yV 12%
[Model]
6-99 5a1yE 12%
[Model]
39-128 5a1yV 14%
[Model]
39-128 5a1yE 14%
[Model]
40-129 5a1yO 15%
[Model]
40-129 5a1yG 15%
[Model]
4-282 5a1yO 13%
[Model]
4-282 5a1yG 13%
[Model]
85-127 5a1yV 17%
[Model]
85-127 5a1yE 17%
[Model]
203-282 5a1yV 22%
[Model]
203-282 5a1yE 22%
[Model]
6-281 5a1yM 12%
[Model]
6-289 5a1yV 11%
[Model]
6-289 5a1yE 11%
[Model]
5-252 5a1yM 11%
[Model]
5-252 5a1yO 11%
[Model]
5-252 5a1yG 11%
[Model]
7-251 5a1yV 12%
[Model]
7-251 5a1yE 12%
[Model]
40-127 5a1yO 14%
[Model]
40-127 5a1yG 14%
[Model]
102-281 5a1yM 12%
[Model]
5-282 5a1yO 10%
[Model]
5-282 5a1yG 10%
[Model]
40-282 5a1yO 8%
[Model]
40-282 5a1yG 8%
[Model]
6-113 5a1yV 11%
[Model]
6-113 5a1yE 11%
[Model]
46-126 5a1yO 11%
[Model]
46-126 5a1yG 11%
[Model]
256-279 5a1yM 17%
[Model]
6-98 5a1yM 14%
[Model]
158-289 5a1yM 14%
[Model]
71-262 5a1yO 10%
[Model]
71-262 5a1yG 10%
[Model]
6-289 5a1yV 10%
[Model]
6-289 5a1yE 10%
[Model]
47-129 5a1yM 13%
[Model]
46-64 5a1yV 11%
[Model]
46-64 5a1yE 11%
[Model]
160-282 5a1yO 13%
[Model]
160-282 5a1yG 13%
[Model]
10-219 5a1yM 13%
[Model]
42-57 5a1yV 25%
[Model]
42-57 5a1yE 25%
[Model]
104-274 5a1yM 9%
[Model]
74-281 5a1yM 9%
[Model]
106-129 5a1yV 13%
[Model]
106-129 5a1yE 13%
[Model]
8-19 5a1yM 0%
[Model]
72-129 5a1yM 13%
[Model]

5a1x: THE STRUCTURE OF THE COPI COAT LINKAGE III
Solved by: X-RAY, Resolution: 21.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

6-281 5a1xO 8%
[Model]
6-281 5a1xG 8%
[Model]
9-282 5a1xE 12%
[Model]
6-99 5a1xE 11%
[Model]
4-278 5a1xO 10%
[Model]
4-278 5a1xG 10%
[Model]
6-282 5a1xE 11%
[Model]
6-99 5a1xM 12%
[Model]
39-128 5a1xM 14%
[Model]
40-129 5a1xO 15%
[Model]
40-129 5a1xG 15%
[Model]
4-282 5a1xO 13%
[Model]
4-282 5a1xG 13%
[Model]
85-127 5a1xM 17%
[Model]
203-282 5a1xM 22%
[Model]
6-281 5a1xE 12%
[Model]
6-289 5a1xM 11%
[Model]
5-252 5a1xE 11%
[Model]
5-252 5a1xO 11%
[Model]
5-252 5a1xG 11%
[Model]
7-251 5a1xM 12%
[Model]
40-127 5a1xO 14%
[Model]
40-127 5a1xG 14%
[Model]
102-281 5a1xE 12%
[Model]
5-282 5a1xO 10%
[Model]
5-282 5a1xG 10%
[Model]
40-282 5a1xO 8%
[Model]
40-282 5a1xG 8%
[Model]
6-113 5a1xM 11%
[Model]
46-126 5a1xO 11%
[Model]
46-126 5a1xG 11%
[Model]
256-279 5a1xE 17%
[Model]
6-98 5a1xE 14%
[Model]
158-289 5a1xE 14%
[Model]
71-262 5a1xO 10%
[Model]
71-262 5a1xG 10%
[Model]
6-289 5a1xM 10%
[Model]
47-129 5a1xE 13%
[Model]
46-64 5a1xM 11%
[Model]
160-282 5a1xO 13%
[Model]
160-282 5a1xG 13%
[Model]
10-219 5a1xE 13%
[Model]
42-57 5a1xM 25%
[Model]
104-274 5a1xE 9%
[Model]
74-281 5a1xE 9%
[Model]
106-129 5a1xM 13%
[Model]
8-19 5a1xE 0%
[Model]
72-129 5a1xE 13%
[Model]

4rxh: CRYSTAL STRUCTURE OF IMPORTIN-ALPHA FROM NEUROSPORA CRASSAWITH SV40NLS
Solved by: X-RAY, Resolution: 1.76A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

7-281 4rxhB 12%
[Model]
6-281 4rxhB 9%
[Model]
40-283 4rxhB 10%
[Model]
5-217 4rxhB 11%
[Model]
71-282 4rxhB 10%
[Model]
5-129 4rxhB 11%
[Model]
5-248 4rxhB 9%
[Model]
104-281 4rxhB 9%
[Model]
6-15 4rxhB 10%
[Model]
40-64 4rxhB 4%
[Model]
157-281 4rxhB 10%
[Model]
274-289 4rxhB 13%
[Model]

5a1w: THE STRUCTURE OF THE COPI COAT LINKAGE II
Solved by: X-RAY, Resolution: 21.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

6-281 5a1wG 8%
[Model]
9-282 5a1wE 12%
[Model]
6-99 5a1wE 11%
[Model]
4-278 5a1wG 10%
[Model]
6-282 5a1wE 11%
[Model]
40-129 5a1wG 15%
[Model]
4-282 5a1wG 13%
[Model]
6-281 5a1wE 12%
[Model]
5-252 5a1wE 11%
[Model]
5-252 5a1wG 11%
[Model]
40-127 5a1wG 14%
[Model]
102-281 5a1wE 12%
[Model]
5-282 5a1wG 10%
[Model]
40-282 5a1wG 8%
[Model]
46-126 5a1wG 11%
[Model]
256-279 5a1wE 17%
[Model]
6-98 5a1wE 14%
[Model]
158-289 5a1wE 14%
[Model]
71-262 5a1wG 10%
[Model]
47-129 5a1wE 13%
[Model]
160-282 5a1wG 13%
[Model]
10-219 5a1wE 13%
[Model]
104-274 5a1wE 9%
[Model]
74-281 5a1wE 9%
[Model]
8-19 5a1wE 0%
[Model]
72-129 5a1wE 13%
[Model]

5a1v: THE STRUCTURE OF THE COPI COAT LINKAGE I
Solved by: X-RAY, Resolution: 21.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

6-281 5a1vO 8%
[Model]
6-281 5a1vG 8%
[Model]
6-281 5a1vX 8%
[Model]
4-278 5a1vO 10%
[Model]
4-278 5a1vG 10%
[Model]
4-278 5a1vX 10%
[Model]
6-99 5a1vV 12%
[Model]
6-99 5a1vM 12%
[Model]
6-99 5a1vE 12%
[Model]
39-128 5a1vV 14%
[Model]
39-128 5a1vM 14%
[Model]
39-128 5a1vE 14%
[Model]
40-129 5a1vO 15%
[Model]
40-129 5a1vG 15%
[Model]
40-129 5a1vX 15%
[Model]
4-282 5a1vO 13%
[Model]
4-282 5a1vG 13%
[Model]
4-282 5a1vX 13%
[Model]
85-127 5a1vV 17%
[Model]
85-127 5a1vM 17%
[Model]
85-127 5a1vE 17%
[Model]
203-282 5a1vV 22%
[Model]
203-282 5a1vM 22%
[Model]
203-282 5a1vE 22%
[Model]
6-289 5a1vV 11%
[Model]
6-289 5a1vM 11%
[Model]
6-289 5a1vE 11%
[Model]
5-252 5a1vO 11%
[Model]
5-252 5a1vG 11%
[Model]
5-252 5a1vX 11%
[Model]
7-251 5a1vV 12%
[Model]
7-251 5a1vM 12%
[Model]
7-251 5a1vE 12%
[Model]
40-127 5a1vO 14%
[Model]
40-127 5a1vG 14%
[Model]
40-127 5a1vX 14%
[Model]
5-282 5a1vO 10%
[Model]
5-282 5a1vG 10%
[Model]
5-282 5a1vX 10%
[Model]
40-282 5a1vO 8%
[Model]
40-282 5a1vG 8%
[Model]
40-282 5a1vX 8%
[Model]
6-113 5a1vV 11%
[Model]
6-113 5a1vM 11%
[Model]
6-113 5a1vE 11%
[Model]
46-126 5a1vO 11%
[Model]
46-126 5a1vG 11%
[Model]
46-126 5a1vX 11%
[Model]
71-262 5a1vO 10%
[Model]
71-262 5a1vG 10%
[Model]
71-262 5a1vX 10%
[Model]
6-289 5a1vV 10%
[Model]
6-289 5a1vM 10%
[Model]
6-289 5a1vE 10%
[Model]
46-64 5a1vV 11%
[Model]
46-64 5a1vM 11%
[Model]
46-64 5a1vE 11%
[Model]
160-282 5a1vO 13%
[Model]
160-282 5a1vG 13%
[Model]
160-282 5a1vX 13%
[Model]
42-57 5a1vV 25%
[Model]
42-57 5a1vM 25%
[Model]
42-57 5a1vE 25%
[Model]
106-129 5a1vV 13%
[Model]
106-129 5a1vM 13%
[Model]
106-129 5a1vE 13%
[Model]

5a1u: THE STRUCTURE OF THE COPI COAT TRIAD
Solved by: X-RAY, Resolution: 21.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

6-281 5a1uG 8%
[Model]
4-278 5a1uG 10%
[Model]
6-99 5a1uE 12%
[Model]
39-128 5a1uE 14%
[Model]
40-129 5a1uG 15%
[Model]
4-282 5a1uG 13%
[Model]
85-127 5a1uE 17%
[Model]
203-282 5a1uE 22%
[Model]
6-289 5a1uE 11%
[Model]
5-252 5a1uG 11%
[Model]
7-251 5a1uE 12%
[Model]
40-127 5a1uG 14%
[Model]
5-282 5a1uG 10%
[Model]
40-282 5a1uG 8%
[Model]
6-113 5a1uE 11%
[Model]
46-126 5a1uG 11%
[Model]
71-262 5a1uG 10%
[Model]
6-289 5a1uE 10%
[Model]
46-64 5a1uE 11%
[Model]
160-282 5a1uG 13%
[Model]
42-57 5a1uE 25%
[Model]
106-129 5a1uE 13%
[Model]

3tjz: CRYSTAL STRUCTURE OF ARF1 BOUND TO THE GAMMA/ZETA-COP CORE
Solved by: X-RAY, Resolution: 2.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

104-261 3tjzE 9%
[Model]
98-261 3tjzB 9%
[Model]
193-289 3tjzB 11%
[Model]
192-282 3tjzE 10%
[Model]
193-289 3tjzE 11%
[Model]
192-282 3tjzB 10%
[Model]
39-278 3tjzE 15%
[Model]
40-278 3tjzB 15%
[Model]
7-247 3tjzB 12%
[Model]
7-247 3tjzE 12%
[Model]
6-99 3tjzE 12%
[Model]
6-99 3tjzB 12%
[Model]
74-230 3tjzE 10%
[Model]
84-218 3tjzB 11%
[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.