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Model Overview
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1
281

Sequence
UniProt Q19341
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q19341: 6239.K06A4.5

Domain
Link to: [ InterPro ]
3-HAO

Model 3D Structure
Model information:
Modelled residue range: 12 to 241
Based on template: [ 2qnk ]  
Sequence Identity [%]: 45%
Model date: 2013-05-06
Revision date: 2013-04-01

Quaternary structure information: [details]
Template (2qnk): MONOMER
Model built: SINGLE CHAIN

Ligand information: [details]
Ligands in the template: NI: 1, PO4: 1.
Ligands in the model: NI: 1
Template Links: [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  
display model: in [ AstexViewer ]
download model: as [ pdb ] - as [ Deepview project ]

Alignment

TARGET    1                 WIQDNQEDF VPPVCNKCMF SDQLKVFYVG GPNQRKDFHL
2qnkA     1     serrlgvra- -wvkenrgsf qppvcnklxh qeqlkvxfig gpntrkdyhi
                                                                      
TARGET                                    ssssss ssssssssss        sss
2qnkA             ssssshh   hhhh          ssssss ssssssssss        sss


TARGET    40    EEGEEFFFQR KGDMVLKVIE KGQVRDLVIK QGEMFMLPAR VEHSPQRFSN
2qnkA     49    eegeevfyql egdxvlrvle qgkhrdvvir qgeifllpar vphspqrfan
                                                                      
TARGET              ssssss  sssssssss   ssssssss sssssss     sssss    
2qnkA               ssssss  sssssssss   ssssssss sssssss     sssss    


TARGET    90    SIGLVVERER KNTEFDCVRF LVGSSNITLF ERWFYLTDVV KDLPPLIKEF
2qnkA     99    tvglvverrr leteldglry yvgdtxdvlf ekwfyckdlg tqlapiiqef
                                                                      
TARGET           ssssssss       sssss ss    ssss ssss    hh hhhhhhhhhh
2qnkA            ssssssss       sssss ss    ssss ssss    hh hhhhhhhhhh


TARGET    140   YGSNEFKTGK PGKGTFACNA PYEARWTDLP VPINRKEFIY DHISEVK-NG
2qnkA     149   fsseqyrtgk pipdqllkep pfplstrsix epxsldawld shhrelqagt
                                                                      
TARGET             hhhhh                           ssshhhhh    hhh    
2qnkA              hhhhh                           ssshhhhh    hhhh   


TARGET    189   PVRIYGAPEY KTEVMLLGEG SYDLESGTVE LLIWLQENTF AV -------
2qnkA     199   plslfg-dty etqviaygqg sseglrqnvd vwlwqlegss vvtxggrrls
                                                                      
TARGET           sss          sss                                     
2qnkA            sss         sssss  s ssss       ssssss sss ssss  ssss


TARGET          ---------- ---------- ---------- ---------            
2qnkA     248   lapddsllvl agtsyawert qgsvalsvtq dpackkplg            
                                                                      
TARGET                                                                
2qnkA           sssssssss      ssssss    ssssss                       



Quality


Template's ligands section
Ligands in the template: NI: 1, PO4: 1.
Ligands in the template that will be assessed: NI287.
Model's ligands section
NI287
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: 0.080
Given the properties calculated previously, the ligand A.NI287 will be included in the final model.
NI287: conservation:True, RMSD:True, included: True

The new model with the included ligands was saved successfully.


Quaternary Structure Annotation of the Template
2qnk 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: 2qnk.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 (=MONOMER)
The target structure was calculated as SINGLE CHAIN
The corresponding reliability score is 0.29 (>0.5 indicates similarity)


Template Selection
 - Start SMR-Pipeline for:2b0f18543e9b54e77b5d04b6bf639d28 on BC2-cluster at Mon May  6 09:27:31
2013 


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

 - Run HHSearch to detect more templates...
 - Generate new template library
 - Run template selection against modified template library 
 - Summarize templates: 
 - No template with D found
 - No template with B 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 F found
 - Proof template(s) selection compared to previous Repository update
 - Different number of templates selected (old0 vs new:2): model based on new templates
 - Send 2 Templates for modeling

 - @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
 -    *****************************************************************
 - building model based on 2qnkA (12-241) was successful 
 -  *******************************************************************************
 - building model based on 2qnkA (4-279) 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:2b0f18543e9b54e77b5d04b6bf639d28 on BC2-cluster at Mon May  6 09:37:48
2013 




Template Description
Match Chain SeqId

1y3t: CRYSTAL STRUCTURE OF YXAG, A DIOXYGENASE FROM BACILLUS SUBTILIS
Solved by: X-RAY, Resolution: 2.40A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

33-274 1y3tA 10%
[Model]
33-274 1y3tB 10%
[Model]
36-95 1y3tA 25%
[Model]
36-95 1y3tB 25%
[Model]

2h0v: CRYSTAL STRUCTURE OF (2636545) FROM BACILLUS SUBTILIS AT 2.60 A RESOLUTION
Solved by: X-RAY, Resolution: 2.60A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

32-274 2h0vB 12%
[Model]
32-274 2h0vA 12%
[Model]
36-96 2h0vB 24%
[Model]
36-96 2h0vA 24%
[Model]

3h7y: CRYSTAL STRUCTURE OF BACB, AN ENZYME INVOLVED IN BACILYSINSYNTHESIS, IN TETRAGONAL FORM
Solved by: X-RAY, Resolution: 2.22A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

22-268 3h7yA 8%
[Model]
33-107 3h7yA 16%
[Model]
22-280 3h7yB 9%
[Model]
33-107 3h7yB 16%
[Model]

3h9a: CRYSTAL STRUCTURE OF BACB, AN ENZYME INVOLVED IN BACILYSINSYNTHESIS, IN TRICLINIC FORM
Solved by: X-RAY, Resolution: 2.04A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

22-280 3h9aA 10%
[Model]
33-106 3h9aA 16%
[Model]
22-280 3h9aB 10%
[Model]
33-106 3h9aB 16%
[Model]

3h7j: CRYSTAL STRUCTURE OF BACB, AN ENZYME INVOLVED IN BACILYSINSYNTHESIS, IN MONOCLINIC FORM
Solved by: X-RAY, Resolution: 1.87A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

22-280 3h7jA 9%
[Model]
33-106 3h7jA 16%
[Model]
22-280 3h7jB 9%
[Model]
33-106 3h7jB 16%
[Model]

1yfu: CRYSTAL STRUCTURE OF 3-HYDROXYANTHRANILATE-3,4-DIOXYGENASEFROM RALSTONIA METALLIDURANS
Solved by: X-RAY, Resolution: 3.20A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

177-264 1yfuA 14%
[Model]
1-167 1yfuA 31%
[Model]

1yfx: CRYSTAL STRUCTURE OF 3-HYDROXYANTHRANILATE-3,4-DIOXYGENASEFROM RALSTONIA METALLIDURANS COMPLEXED WITH 4-CHLORO-3- HYDROXYANTHRANILIC ACID AND NO
Solved by: X-RAY, Resolution: 3.20A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

177-264 1yfxA 14%
[Model]
1-167 1yfxA 31%
[Model]

1yfw: CRYSTAL STRUCTURE OF 3-HYDROXYANTHRANILATE-3,4-DIOXYGENASEFROM RALSTONIA METALLIDURANS COMPLEXED WITH 4-CHLORO-3- HYDROXYANTHRANILIC ACID AND O2
Solved by: X-RAY, Resolution: 3.20A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

177-264 1yfwA 14%
[Model]
1-167 1yfwA 31%
[Model]

1yfy: CRYSTAL STRUCTURE OF 3-HYDROXYANTHRANILATE-3,4-DIOXYGENASEFROM RALSTONIA METALLIDURANS COMPLEXED WITH 3- HYDROXYANTHRANILIC ACID
Solved by: X-RAY, Resolution: 3.20A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

177-264 1yfyA 14%
[Model]
1-167 1yfyA 31%
[Model]

1h1i: CRYSTAL STRUCTURE OF QUERCETIN 2,3-DIOXYGENASE ANAEROBICALLY COMPLEXED WITH THE SUBSTRATE QUERCETN
Solved by: X-RAY, Resolution: 1.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

32-275 1h1iB 12%
[Model]
32-275 1h1iD 12%
[Model]
32-274 1h1iC 11%
[Model]
32-275 1h1iA 12%
[Model]

1h1m: CRYSTAL STRUCTURE OF QUERCETIN 2,3-DIOXYGENASE ANAEROBICALLY COMPLEXED WITH THE SUBSTRATE KAEMPFEROL
Solved by: X-RAY, Resolution: 1.90A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

32-274 1h1mC 11%
[Model]
32-275 1h1mA 12%
[Model]
32-275 1h1mB 12%
[Model]
32-275 1h1mD 12%
[Model]

2i45: CRYSTAL STRUCTURE OF PROTEIN NMB1881 FROM NEISSERIA MENINGITIDIS
Solved by: X-RAY, Resolution: 2.50A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

180-280 2i45B 11%
[Model]
181-277 2i45A 11%
[Model]
5-108 2i45A 21%
[Model]
5-108 2i45B 21%
[Model]
181-277 2i45C 12%
[Model]
5-108 2i45C 21%
[Model]
5-109 2i45D 21%
[Model]
181-280 2i45E 11%
[Model]
5-108 2i45E 21%
[Model]
5-109 2i45F 21%
[Model]
181-277 2i45G 12%
[Model]
181-277 2i45H 12%
[Model]
5-108 2i45G 21%
[Model]
5-108 2i45H 21%
[Model]
180-277 2i45I 12%
[Model]
181-277 2i45J 11%
[Model]
5-108 2i45I 21%
[Model]
5-108 2i45J 21%
[Model]

3rns: CUPIN 2 CONSERVED BARREL DOMAIN PROTEIN FROM LEPTOTRICHIA
Solved by: X-RAY, Resolution: 2.07A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

202-272 3rnsA 10%
[Model]
5-98 3rnsA 17%
[Model]
4-275 3rnsA 7%
[Model]

3d82: CRYSTAL STRUCTURE OF DOMAIN OF UNKNOWN FUNCTION WITH A CUPIN FOLD (YP_752209.1) FROM SHEWANELLA FRIGIDIMARINA NCIMB 400 AT 2.05 A RESOLUTION
Solved by: X-RAY, Resolution: 2.05A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

179-277 3d82E 12%
[Model]
179-277 3d82D 12%
[Model]
4-109 3d82E 19%
[Model]
4-109 3d82D 19%
[Model]
179-277 3d82A 12%
[Model]
4-109 3d82A 19%
[Model]
180-275 3d82C 10%
[Model]
180-275 3d82B 10%
[Model]
4-109 3d82C 18%
[Model]
4-109 3d82B 18%
[Model]

3fe5: CRYSTAL STRUCTURE OF 3-HYDROXYANTHRANILATE 3,4-DIOXYGENASEFROM BOVINE KIDNEY
Solved by: X-RAY, Resolution: 2.51A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

181-264 3fe5A 9%
[Model]
1-111 3fe5A 15%
[Model]
5-279 3fe5A 37%
[Model]

1zvf: THE CRYSTAL STRUCTURE OF 3-HYDROXYANTHRANILATE 3,4- DIOXYGENASE FROM SACCHAROMYCES CEREVISIAE
Solved by: X-RAY, Resolution: 2.41A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

177-277 1zvfB 9%
[Model]
177-277 1zvfA 9%
[Model]
1-167 1zvfA 33%
[Model]
1-163 1zvfB 33%
[Model]

1yhf: CRYSTAL STRUCTURE OF CONSERVED SPY1581 PROTEIN OF UNKNOWN FUNCTION FROM STREPTOCOCCUS PYOGENES
Solved by: X-RAY, Resolution: 2.00A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

179-276 1yhfA 8%
[Model]
4-108 1yhfA 11%
[Model]

2qnk: CRYSTAL STRUCTURE OF HUMAN 3-HYDROXYANTHRANILATE 3,4- DIOXYGENASE
Solved by: X-RAY, Resolution: 1.60A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

180-264 2qnkA 8%
[Model]
1-113 2qnkA 14%
[Model]
4-279 2qnkA 38%
[Model]

1gqg: QUERCETIN 2,3-DIOXYGENASE IN COMPLEX WITH THE INHIBITOR DIETHYLDITHIOCARBAMATE
Solved by: X-RAY, Resolution: 2.15A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

32-275 1gqgB 12%
[Model]
32-275 1gqgD 10%
[Model]
40-109 1gqgB 5%
[Model]
40-70 1gqgD 3%
[Model]
32-275 1gqgC 12%
[Model]
32-275 1gqgA 12%
[Model]
36-108 1gqgC 5%
[Model]
36-108 1gqgA 5%
[Model]

1juh: CRYSTAL STRUCTURE OF QUERCETIN 2,3-DIOXYGENASE
Solved by: X-RAY, Resolution: 1.60A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

32-275 1juhB 10%
[Model]
32-274 1juhD 11%
[Model]
41-108 1juhD 5%
[Model]
36-70 1juhB 3%
[Model]
32-274 1juhC 12%
[Model]
32-275 1juhA 11%
[Model]
41-108 1juhC 5%
[Model]
36-108 1juhA 5%
[Model]

1gqh: QUERCETIN 2,3-DIOXYGENASE IN COMPLEX WITH THE INHIBITOR KOJIC ACID
Solved by: X-RAY, Resolution: 2.15A, Identified by HHSEARCH
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

32-275 1gqhB 10%
[Model]
32-275 1gqhD 11%
[Model]
32-275 1gqhC 12%
[Model]
32-275 1gqhA 12%
[Model]
36-108 1gqhA 5%
[Model]
36-108 1gqhC 5%
[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.