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Model Overview
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1
265

Sequence
UniProt Q944A9
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

Domain
Link to: [ InterPro ]
Sec20

Model 3D Structure
Model information:
Modelled residue range: 148 to 205
Based on template: [ 1gl2 ]  
Sequence Identity [%]: 29%
Model date: 2012-11-02
Revision date: 2012-10-15

Quaternary structure information: [details]
Template (1gl2): HETERO TETRAMER
Model built :SINGLE CHAIN

Ligand information: [details]
Ligands in the template: none.
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 2012-10-15. 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        DDTDQAI ERGKKIVQET INVGTDTSAA LKAQTEQMSR VVNELDSIHF
1gl2C     139   m--nratqsi ershriatet dqigteiiee lgeqrdqler tksrlvntne
                                                                      
TARGET              hhhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh
1gl2C               hhhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh


TARGET    48    SLKKASKLVK E                                          
1gl2C     187   nlsksrkilr s-                                         
                                                                      
TARGET          hhhhhhhhhh                                            
1gl2C           hhhhhhhhhh

Quality 


Template's ligands section 
Template without ligands. 
No ligands were included in the model.

 
Quaternary Structure Annotation of the Template 
 1gl2 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: 1gl2.pdb1.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 1gl2_1

Template Selection 
 - Start SMR-Pipeline for:dec08274010c2b957f02de53dc69e7d6 on BC2-cluster at Fri Nov  2 19:47:15
2012 


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

FATAL - No A3m found

 - Run HHSearch to detect more templates...
 - Generate new template library
 - Run template selection against modfied template library 
 - Summarize templates: 
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with B found
 - No template with D found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with H found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with Q found
 - No template with R found
 - No template with T found
 - No template with k found
 - No template with Y found
 - No template with Z found
 - No template with b found
 - No template with m found
 - No template with I found
 - No template with J found
 - No template with L found
 - No template with i found
 - No template with c found
 - No template with d found
 - No template with f found
 - No template with n found
 - No template with M found
 - No template with N found
 - No template with P found
 - No template with j found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with g found
 - No template with U found
 - No template with V found
 - No template with X found
 - No template with l found
 - No template with E found
 - No template with F found
 - No template with H found
 - No template with h found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with E found
 - No template with F found
 - No template with H found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with G found
 - No template with H found
 - No template with A found
 - No template with C found
 - No template with D found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with H found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with G found
 - No template with H found
 - No template with A found
 - No template with C found
 - No template with D found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with F found
 - No template with H found
 - No template with I found
 - No template with J found
 - No template with L found
 - No template with A found
 - No template with B found
 - No template with D found
 - No template with E found
 - No template with A found
 - No template with B found
 - No template with D found
 - Warning: Oligomer Prediction was not successfull!

 - Proof template(s) selection compared to previous Repository update
 - Selected template(s): no changes compared to previous version of the Repository:
 -  Template: 1gl2C (148-205) Sequence Identity: 29.310
 -  Template: 3hd7F (149-234) Sequence Identity: 13.483
 -  Template: 2qywA (1-95) Sequence Identity: 11.579
 - Send 3 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -                                              ******************
 - building model based on 1gl2C (148-205) was successful 
 -                                              **************************
 - building model based on 3hd7F (149-234) was successful 
 - *****************************
 - building model based on 2qywA (1-95) 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:dec08274010c2b957f02de53dc69e7d6 on BC2-cluster at Fri Nov  2 19:54:15
2012


Template Description
Match Chain SeqId

1gl2: CRYSTAL STRUCTURE OF AN ENDOSOMAL SNARE CORE COMPLEX
Solved by: X-RAY, Resolution: 1.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

148-205 1gl2C 29%
[Model]

1l4a: X-RAY STRUCTURE OF THE NEURONAL COMPLEXIN/SNARE COMPLEX FROM THE SQUID LOLIGO PEALEI
Solved by: X-RAY, Resolution: 2.95A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

137-204 1l4aC 28%
[Model]

1urq: CRYSTAL STRUCTURE OF NEURONAL Q-SNARES IN COMPLEX WITH R- SNARE MOTIF OF TOMOSYN
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

143-208 1urqC 27%
[Model]

1sfc: NEURONAL SYNAPTIC FUSION COMPLEX
Solved by: X-RAY, Resolution: 2.40A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

138-208 1sfcK 27%
[Model]
139-208 1sfcG 26%
[Model]
137-208 1sfcC 26%
[Model]

3rl0: TRUNCATED SNARE COMPLEX WITH COMPLEXIN (P1)
Solved by: X-RAY, Resolution: 3.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

136-204 3rl0C 26%
[Model]
136-206 3rl0G 25%
[Model]
136-204 3rl0K 26%
[Model]
136-204 3rl0O 26%
[Model]
137-204 3rl0S 26%
[Model]
136-201 3rl0W 26%
[Model]
137-204 3rl0a 26%
[Model]
136-204 3rl0e 26%
[Model]

1kil: THREE-DIMENSIONAL STRUCTURE OF THE COMPLEXIN/SNARE COMPLEX
Solved by: X-RAY, Resolution: 2.30A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

137-206 1kilC 26%
[Model]

3rk3: TRUNCATED SNARE COMPLEX WITH COMPLEXIN
Solved by: X-RAY, Resolution: 3.50A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

138-199 3rk3C 26%
[Model]

1n7s: HIGH RESOLUTION STRUCTURE OF A TRUNCATED NEURONAL SNARE COMPLEX
Solved by: X-RAY, Resolution: 1.45A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

135-208 1n7sC 26%
[Model]

3rk2: TRUNCATED SNARE COMPLEX
Solved by: X-RAY, Resolution: 2.20A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

135-207 3rk2C 26%
[Model]
135-207 3rk2G 26%
[Model]

1jth: CRYSTAL STRUCTURE AND BIOPHYSICAL PROPERTIES OF A COMPLEX BETWEEN THE N-TERMINAL REGION OF SNAP25 AND THE SNARE REGION OF SYNTAXIN 1A
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

137-203 1jthC 25%
[Model]
140-197 1jthA 24%
[Model]

2nps: CRYSTAL STRUCTURE OF THE EARLY ENDOSOMAL SNARE COMPLEX
Solved by: X-RAY, Resolution: 2.50A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

135-211 2npsC 21%
[Model]

3ipd: HELICAL EXTENSION OF THE NEURONAL SNARE COMPLEX INTO THE MEMBRANE, SPACEGROUP I 21 21 21
Solved by: X-RAY, Resolution: 4.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

136-207 3ipdC 26%
[Model]
149-232 3ipdB 14%
[Model]
136-207 3ipdG 26%
[Model]
149-232 3ipdF 14%
[Model]

3hd7: HELICAL EXTENSION OF THE NEURONAL SNARE COMPLEX INTO THE MEMBRANE, SPACEGROUP C 1 2 1
Solved by: X-RAY, Resolution: 4.80A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

136-207 3hd7C 26%
[Model]
149-232 3hd7B 14%
[Model]
137-207 3hd7G 27%
[Model]
149-234 3hd7F 13%
[Model]

2qyw: CRYSTAL STRUCTURE OF MOUSE VTI1B HABC DOMAIN
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

1-95 2qywA 12%
[Model]

2v8s: VTI1B HABC DOMAIN - EPSINR ENTH DOMAIN COMPLEX
Solved by: X-RAY, Resolution: 2.22A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

3-92 2v8sV 11%
[Model]

3onl: YEAST ENT3_ENTH-VTI1P_HABC COMPLEX STRUCTURE
Solved by: X-RAY, Resolution: 2.20A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

10-91 3onlC 10%
[Model]

3onj: CRYSTAL STRUCTURE OF YEAST VTI1P_HABC DOMAIN
Solved by: X-RAY, Resolution: 1.92A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

10-92 3onjA 9%
[Model]

1vcs: SOLUTION STRUCTURE OF RSGI RUH-009, AN N-TERMINAL DOMAIN OVTI1A [MUS MUSCULUS]
Solved by: NMR, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

6-99 1vcsA 7%
[Model]

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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.