SWISS-MODEL Repository 
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SWISS-MODEL Repository - Model Details
Model Overview
Sequence
Domain
Model 3D Structure
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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 ]
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Alignment
2uzyD 42 qlpnftaetp iqnvilhehh iflgatnyiy vlneedlqkv aeyktgpvle
2uzyD sss s sssssss ss ssssssssss ssss sss sssss
2uzyD 111 vwkdninmal vvdtyyddql iscgsvnrgt cqrhvfphnh sevhcifsep
2uzyD ss sss sss sss sssss
2uzyD 170 sqcpdcvvsa lgakvlssvk drfinffvgn tinssyplhs isvrrlketk
2uzyD sssssssss ssssssss s s ssssss
2uzyD 224 dgfmfltdqs yidvlpefrd sypikyvhaf esnnfiyflt vqretldaqt
2uzyD s ss h h ssssss ss ssssss ss
2uzyD 274 fhtriirfcs insglhsyme mpleciltev fnilqaayvs kpgaqlarqi
2uzyD sssssss ss sssssss ss s ssssssss hhhhhh
2uzyD 334 gaslnddilf avfaqskpds aepmdrsamc afpikyvndf fnkirclqhf
2uzyD ssss sssssss sss s sssshhh
2uzyD 390 ygpndeyrte fttalqrvdl fmgqfsevll tsistfikgd ltianlgtse
2uzyD sss ss ssssssss sssssssss
2uzyD 460 grfmqvvvsr sgpstphvnf lldshpvspe vivehtlnqn gytlvitgkk
2uzyD ssssssss sss ss sss ssssss s
TARGET 1 CTNLASDC SSCLALSPSL SCGWCNRQCS H--ECHESKA
2uzyD 510 itkiplnglg --crhfqs-c sqclsappfv qcgwchdkcv rseeclsgtw
TARGET hhh
2uzyD ssss h hhhh
TARGET 37 TAVCDPPRID KFEPTSGPIE GGTIIKIYGN DLGMSVEDVR G----KIYVA
2uzyD 557 tqqiclpaiy kvfpnsaple ggtrlticgw dfgfrrnnkf dlkktrvllg
TARGET sss sss ssssss ssss
2uzyD sss sss sss ssssssss sssssss
TARGET 83 GSRCNIV-EY HVSNMIACQV DKGVSSGPIR ISVGRATVAV AESSELYSFV
2uzyD 607 nesctltlse stmntlkctv gfnms---ii isnghgttqy st----fsyv
TARGET sss sssss hhhh s sss sss
2uzyD sss sssssss ssss ss ssss sssss ssss
TARGET 132 RTSIFSAYPL YGPISGGTRI TLYGQNLSSG SQTSVTVGGM PCPIERVNSS
2uzyD 656 dpvitsispk ygpmaggtll tltgnhis-- ------iggk tctlksv-sn
TARGET sss sss ssssss s ss sss sss
2uzyD ssssss sss sssss sss
TARGET 182 TVLTCLTPSG TRIGKSARVV VHVDHSQTQL DQPFEYRSD
2uzyD 705 silecytpaq t-istefavk lkidlanre- tsifsyred-
TARGET sssssss sss sss sss
2uzyD sssssss sss sss
Template's ligands section
Template without ligands.
No ligands were included in the model.
Quaternary Structure Annotation of the Template
2uzy is annotated as HETERO DIMER
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: 2uzy.pdb2.gz
Quaternary Structure Modelling of the Target Protein
2uzy_2
Template Selection
- Start SMR-Pipeline for:aa3978fa9d644ea4073b55ab2eda27ce on BC2-cluster at Wed Feb 20 06:47:41
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 modfied template library
- Summarize templates:
- No template with A found
- No template with A found
- No template with E found
- No template with C found
- No template with B found
- No template with B found
- No template with C found
- No template with A found
- No template with A found
- No template with C found
- No template with C found
- No template with C found
- No template with B found
- No template with A found
- No template with A found
- No template with A found
- No template with A found
- No template with G found
- No template with H found
- No template with G found
- No template with H found
- Proof template(s) selection compared to previous Repository update
- Different number of templates selected (old0 vs new:6): model based on new templates
- Send 6 Templates for modeling
- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
- **
- building model based on 3nvnB (444-479) was not successful go to next best template
- **
- building model based on 3nvqF (444-479) was not successful go to next best template
- **
- building model based on 3nvqB (444-479) was not successful go to next best template
- **********
- building model based on 2uzyD (708-927) was successful
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- building model based on 3su8X (1196-1747) was successful
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- building model based on 3rytB (1153-1748) was successful
- ********************
- building model based on 3al8B (44-479) was not successful go to next best template
- ********************
- building model based on 3al9B (44-479) was not successful go to next best template
- ********************
- building model based on 3al9A (44-479) was not successful go to next best template
- ************************
- building model based on 3okyA (44-579) was not successful go to next best template
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- Oligomeric modeling of 3oktA was not successful, fall back to monomeric modeling
- building model based on 3oktA (44-605) was not successful go to next best template
- *************************
- building model based on 4gzaF (44-605) was not successful go to next best template
- *************************
- building model based on 4gzaB (44-605) was not successful go to next best template
- *************************
- building model based on 4gzaE (44-605) was not successful go to next best template
- *************************
- building model based on 4gzaA (44-605) was not successful go to next best template
- *************************
- building model based on 4gzaD (44-605) was not successful go to next best template
- *************************
- building model based on 4gzaC (44-605) was not successful go to next best template
- ***
- building model based on 4hw6A (487-560) 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:aa3978fa9d644ea4073b55ab2eda27ce on BC2-cluster at Wed Feb 20 07:13:49
2013
Template Search
| Template Description |
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4hw6: CRYSTAL STRUCTURE OF A HYPOTHETICAL PROTEIN (BACOVA_00264)BACTEROIDES OVATUS ATCC 8483 AT 1.70 A RESOLUTION Solved by: X-RAY, Resolution: 1.70A, Identified by HHSEARCH |
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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.