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Model Overview
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1
661

Sequence
UniProt Q94523
Database: TrEMBL (Unreviewed) automatically annotated and not reviewed

STRING
Q94523: 7227.FBpp0085737

Domain
Link to: [ InterPro ]
FAD_binding_2
Succ_DH_flav_C

Model 3D Structure
Model information:
Modelled residue range: 51 to 661
Based on template: [ 2fbw ]  
Sequence Identity [%]: 79%
Model date: 2013-02-22
Revision date: 2013-01-30

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

Ligand information: [details]
Ligands in the template: FAD: 1, K: 1, TEO: 1, UNL: 1.
Ligands in the model: K: 1
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        QYPVVDH AYDAIVVGAG GAGLRAAFGL VAEGFRTAVI TKLFPTRSHT
2fbwN     10    t--qypvvdh efdavvvgag gaglraafgl seagfntacv tklfptrsht
                                                                      
TARGET               sssss ss sssss   hhhhhhhhhh hh    ssss s        h
2fbwN                sssss ss sssss   hhhhhhhhhh hh   sssss s        h


TARGET    48    IAAQGGINAA LGNMEEDDWK WHMYDTVKGS DWLGDQDAIH YMTREAPKAV
2fbwN     58    vaaqgginaa lgnmeddnwr whfydtvkgs dwlgdqdaih ymteqapaav
                                                                      
TARGET          h     sss           h hhhhhhhhh       hhhhh hhhhhhhhhh
2fbwN           h     sss           h hhhhhhhhh       hhhhh hhhhhhhhhh


TARGET    98    IELENYGMPF SRTQDGKIYQ RAFGGQSLKF GKGGQAHRCC AVADRTGHSL
2fbwN     108   ielenygmpf srteegkiyq rafggqslqf gkggqahrcc cvadrtghsl
                                                                      
TARGET          hhhhhh     sss   sss       sss      sss sss      hhhhh
2fbwN           hhhhhh     sss   sss       sss      sss sss      hhhhh


TARGET    148   LHTLYGQSLS YDCNYFVEYF ALDLIFEDGE CRGVLALNLE DGTLHRFRAK
2fbwN     158   lhtlygrslr ydtsyfveyf aldllmenge crgvialcie dgtihrfrak
                                                                      
TARGET          hhhhhhhhh     sssssss sssssss  s sssssssss    sssssss 
2fbwN           hhhhhhhhh     sssssss sssssss  s sssssssss    sssssss 


TARGET    198   NTVIATGGYG RAFFSCTSAH TCTGDGTAMV ARQGLPSQDL EFVQFHPTGI
2fbwN     208   ntviatggyg rtyfsctsah tstgdgtamv traglpcqdl efvqfhptgi
                                                                      
TARGET          sssss                     hhhhhh hh    sss   sssssssss
2fbwN           sssss                     hhhhhh hh    sss   sssssssss


TARGET    248   YGAGCLITEG CRGEGGYLIN GNGERFMERY APVAKDLASR DVVSRSMTIE
2fbwN     258   ygagcliteg crgeggilin sqgerfmery apvakdlasr dvvsrsmtie
                                                                      
TARGET          s   sss  h hhh   sss        hhhh          h hhhhhhhhhh
2fbwN           s   sss  h hhh   sss        hhhh          h hhhhhhhhhh


TARGET    298   IMEGRGAGPE KDHVYLQLHH LPPKQLAERL PGISETAMIF AGVDVTREPI
2fbwN     308   iregrgcgpe kdhvylqlhh lppqqlatrl pgisetamif agvdvtkepi
                                                                      
TARGET          hh            ssss      hhhhhh    hhhhhhhhh          s
2fbwN           hh            ssss      hhhhhh    hhhhhhhhh          s


TARGET    348   PVLPTVHYNM GGVPTNYRGQ VITIDKDGKD VIVPGLYAAG EAASSSVHGA
2fbwN     358   pvlptvhynm ggiptnykgq vit-hvnged kvvpglyacg eaasasvhga
                                                                      
TARGET          ssssssssss   ssss  ss sss        sss sssss   sss      
2fbwN           ssssssssss   ssss  ss sss ss  ss sss sssss   sss      


TARGET    398   NRLGANSLLD LVVFGRACAK TIAELNKPGA PAPTLKENAG EASVANLDKL
2fbwN     407   nrlganslld lvvfgracal tiaetckpge pvpsikpnag eesvanldkl
                                                                      
TARGET                hhhh hhhhhhhhhh hhhh                  hhhhhhhhhh
2fbwN                 hhhh hhhhhhhhhh hhhh                  hhhhhhhhhh


TARGET    448   RHANGQITTA DLRLKMQKTM QHHAAVFRDG PILQDGVNKM KEIYKQFKDI
2fbwN     457   rfadgtirts earlnmqktm qshaavfrtg silqegcekl sqiyrdlahl
                                                                      
TARGET            ssss  hh hhhhhhhhhh hh       h hhhhhhhhhh hhhhhhh ss
2fbwN           hhsss   hh hhhhhhhhhh hh       h hhhhhhhhhh hhhh     s


TARGET    498   KVVDRSLIWN SDLVETLELQ NLLANAQMTI VSAEARKESR GAHAREDFKV
2fbwN     507   ktfdrgivwn tdlvetlelq nlmlcalqti ygaearkesr gaharedykl
                                                                      
TARGET          ss         hhhhhhhhhh hhhhhhhhhh hhhhh                
2fbwN           ss         hhhhhhhhhh hhhhhhhhhh hhhhh                


TARGET    548   REDEYDFSKP LDGQQKKPMD QHWRKHTLSW VCNDNGDITL DYRNVIDTTL
2fbwN     557   ridefdyskp lqgqqkrpfe ehwrkhtlsy vdvksgkvtl kyrpvidrtl
                                                                      
TARGET                                     sssss ss    ssss sss       
2fbwN                                      sssss ss    ssss sss       


TARGET    598   D-NEVSTVPP AIRSY                                      
2fbwN     607   needcssvpp airsy-                                     
                                                                      
TARGET                                                                
2fbwN

Quality 


Template's ligands section 
Ligands in the template: FAD: 1, K: 1, TEO: 1, UNL: 1. 
Ligands in the template that will be assessed: FAD1001, K205. 
Model's ligands section 
FAD1001 
One or more ligand's atoms are closer than 1.5 Angstroem to one or more atoms that belong to the model or to other ligands. 
Given the properties calculated previously, the ligand N.FAD1001 will not be included in the model. 
FAD1001: conservation:True, RMSD:False, included: False 
 
K205 
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 K205 will be included in the final model. 
K205: conservation:True, RMSD:True, included: True 
 
The new model with the included ligands was saved successfully.

 
Quaternary Structure Annotation of the Template 
 2fbw 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: 2fbw.pdb2.gz 
      
 
Quaternary Structure Modelling of the Target Protein 
 2fbw_2

Template Selection 
 - Start SMR-Pipeline for:b44908b45d9ed755369d3069e3c751b9 on BC2-cluster at Fri Feb 22 10:01:16
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 B found
 - No template with C 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 C 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 C 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 C 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 C found
 - No template with D found
 - No template with B found
 - No template with C found
 - No template with D 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 B found
 - No template with C found
 - No template with D found
 - No template with O found
 - No template with P found
 - No template with Q found
 - No template with B found
 - No template with C 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 C 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 C found
 - No template with D found
 - No template with O found
 - No template with P found
 - No template with Q found
 - No template with B found
 - No template with C found
 - No template with D found
 - No template with O found
 - No template with P found
 - No template with Q found
 - No template with B found
 - No template with C 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 C 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 C 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 C 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 C found
 - No template with D 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 B found
 - No template with C found
 - No template with D 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 2fbwN (51-661) 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:b44908b45d9ed755369d3069e3c751b9 on BC2-cluster at Fri Feb 22 10:03:38
2013


Template Description
Match Chain SeqId

2wqy: REMODELLING OF CARBOXIN BINDING TO THE Q-SITE OF AVIAN RESCOMPLEX II
Solved by: X-RAY, Resolution: 2.10A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 2wqyA 79%
[Model]
51-661 2wqyN 79%
[Model]

2h88: AVIAN MITOCHONDRIAL RESPIRATORY COMPLEX II AT 1.8 ANGSTROMRESOLUTION
Solved by: X-RAY, Resolution: 1.74A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

51-661 2h88A 79%
[Model]
51-661 2h88N 79%
[Model]

2h89: AVIAN RESPIRATORY COMPLEX II WITH MALONATE BOUND
Solved by: X-RAY, Resolution: 2.40A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

51-661 2h89A 79%
[Model]

2fbw: AVIAN RESPIRATORY COMPLEX II WITH CARBOXIN BOUND
Solved by: X-RAY, Resolution: 2.10A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 2fbwA 79%
[Model]
51-661 2fbwN 79%
[Model]

1yq3: AVIAN RESPIRATORY COMPLEX II WITH OXALOACETATE AND UBIQUINONE
Solved by: X-RAY, Resolution: 2.20A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

48-661 1yq3A 79%
[Model]

1yq4: AVIAN RESPIRATORY COMPLEX II WITH 3-NITROPROPIONATE AND UBIQUINONE
Solved by: X-RAY, Resolution: 2.33A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

48-661 1yq4A 79%
[Model]

3aef: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IEMPTY QUINONE-BINDING POCKET
Solved by: X-RAY, Resolution: 2.80A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aefA 77%
[Model]

3ae7: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-IODO-N-(3-ISOPROPOXY-PHENYL)-BENZAMIDE
Solved by: X-RAY, Resolution: 3.62A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae7A 77%
[Model]

3aeg: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-BIPHENYL-3-YL-2-IODO-BENZAMIDE
Solved by: X-RAY, Resolution: 3.27A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aegA 77%
[Model]

3ae4: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-IODO-N-METHYL-BENZAMIDE
Solved by: X-RAY, Resolution: 2.91A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae4A 77%
[Model]

3ae2: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-HYDROXY-N-PHENYL-BENZAMIDE
Solved by: X-RAY, Resolution: 3.10A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae2A 77%
[Model]

3sfd: CRYSTAL STRUCTURE OF PORCINE MITOCHONDRIAL RESPIRATORY COMBOUND WITH OXALOACETATE AND PENTACHLOROPHENOL
Solved by: X-RAY, Resolution: 2.61A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3sfdA 77%
[Model]

3sfe: CRYSTAL STRUCTURE OF PORCINE MITOCHONDRIAL RESPIRATORY COMBOUND WITH OXALOACETATE AND THIABENDAZOLE
Solved by: X-RAY, Resolution: 2.81A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3sfeA 77%
[Model]

3abv: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-BIPHENYL-3-YL-2-TRIFLUOROMETHYL-BENZAMIDE
Solved by: X-RAY, Resolution: 3.24A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3abvA 77%
[Model]

3aee: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IATPENIN A5
Solved by: X-RAY, Resolution: 3.22A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aeeA 77%
[Model]

3ae9: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-(3-PENTAFLUOROPHENYLOXY-PHENYL)-2-TRIFLUOROMETHYL-BENZA
Solved by: X-RAY, Resolution: 3.31A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae9A 77%
[Model]

3ae3: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-NITRO-N-PHENYL-BENZAMIDE
Solved by: X-RAY, Resolution: 3.35A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae3A 77%
[Model]

1zoy: CRYSTAL STRUCTURE OF MITOCHONDRIAL RESPIRATORY COMPLEX II FROM PORCINE HEART AT 2.4 ANGSTROMS
Solved by: X-RAY, Resolution: 2.40A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 1zoyA 77%
[Model]

3aeb: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-(3-PHENOXY-PHENYL)-2-TRIFLUOROMETHYL-BENZAMIDE
Solved by: X-RAY, Resolution: 3.00A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aebA 77%
[Model]

3ae8: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-(3-ISOPROPOXY-PHENYL)-2-TRIFLUOROMETHYLBENZAMIDE
Solved by: X-RAY, Resolution: 3.40A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae8A 77%
[Model]

3aea: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-(3-DIMETHYLAMINOMETHYL-PHENYL)-2-TRIFLUOROMETHYL-BENZAM
Solved by: X-RAY, Resolution: 3.39A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aeaA 77%
[Model]

3aed: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-IODO-N-PHENYL-BENZAMIDE
Solved by: X-RAY, Resolution: 3.52A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aedA 77%
[Model]

3ae5: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-METHYL-N-(3-ISOPROPOXY-PHENYL)-BENZAMIDE
Solved by: X-RAY, Resolution: 3.41A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae5A 77%
[Model]

3aec: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX I2-IODO-N-(1-METHYLETHYL)-BENZAMID
Solved by: X-RAY, Resolution: 3.61A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3aecA 77%
[Model]

3ae1: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-PHENYL-2-(TRIFLUOROMETHYL)-BENZAMIDE
Solved by: X-RAY, Resolution: 3.14A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae1A 77%
[Model]

1zp0: CRYSTAL STRUCTURE OF MITOCHONDRIAL RESPIRATORY COMPLEX II BOUND WITH 3-NITROPROPIONATE AND 2-THENOYLTRIFLUOROACETON
Solved by: X-RAY, Resolution: 3.50A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 1zp0A 77%
[Model]

3ae6: CRYSTAL STRUCTURE OF PORCINE HEART MITOCHONDRIAL COMPLEX IN-(3-ISOPROPOXY-PHENYL)-PHTHALAMICACID
Solved by: X-RAY, Resolution: 3.40A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

49-661 3ae6A 77%
[Model]

3vrb: MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARANEMATODE ASCARIS SUUM WITH THE SPECIFIC INHIBITOR FLUTOLASUBSTRATE FUMARATE
Solved by: X-RAY, Resolution: 2.91A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

51-661 3vrbA 71%
[Model]
51-661 3vrbE 71%
[Model]

3vr8: MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARANEMATODE ASCARIS SUUM
Solved by: X-RAY, Resolution: 2.81A, Identified by BLAST
[ SMTL ]   [ RCSB ]   [ PDBe ]   [ SCOP ]  [ CATH ]  

51-661 3vr8A 71%
[Model]
51-661 3vr8E 71%
[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.