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
TARGET 1 SF FLCSMALIIF FMQCGFAYLE AGAVRSKNTT NILIKNLLDS
2b2fA 1 msdgnv--aw ilastalvml -mvpgvgffy agmvrrknav nmialsfisl
TARGET h hhhhhhhh hhhhhh hh hh hhhhhhhhhh
2b2fA hhhh hh hhhhhhhhhh hhhhhhhhh hh hh hhhhhhhhhh
TARGET 43 CICIIGYWAI GWALAYGDSG EGVNLFVGHS QFFLSGFSDY PRF--FFQYV
2b2fA 48 iitvllwify gysvsfgndi sgi--iggln yallsgvkge dllfmmyqmm
TARGET hhhhhhhh h sss sss hh
2b2fA hhhhhhhh hhhh sss sss hhhhhhhhhh
TARGET 91 FSATAATIVS GAVAERCEFI TYVTYCTVIS TFIYPVLTHW GWTENGWMAK
2b2fA 96 faavtiailt saiaerakvs sfillsalwl tfvyapfahw lwg-ggwlak
TARGET hhhhhhhhhh h ssshh hhhhhhhhhh hhhhhhh hh sss
2b2fA hhhhhhhhhh h ssshh hhhhhhhhhh hhhhhhh h hhhh
TARGET 141 GITSGIIDTK YDDFAGSGLV HLCGGSISFL AAWIMGPRIG KFPDDEDDES
2b2fA 145 ---lgald-- ---faggmvv hissgfaala vamtigkrag f-------ee
TARGET ssss hhh hhh hhhhhhhhhh hhhhh
2b2fA hhhh hhhhhhhhhh hhhhh
TARGET 191 DEILGHSVPF TALGGFILMF GFLAFNGGSV ASISHAGDGH TVALAMINTI
2b2fA 180 ysiephsipl tligaallwf gwfgfnggsa la---andva inavvvtnt-
TARGET hhh hhhhhhhhhh hhhhhhhhhh h hhh hhhhhhh
2b2fA hhh hhhhhhhhhh hhhhhhhhh hhh hhhhhhhhh
TARGET 241 LSGAFAALIY LGVHYYQHGK WTLLLTINAC LSGMVAACAG CNKMEPWACI
2b2fA 226 -saavagfvw mvigwik-gk pgslgivsga iaglaaitpa agfvdvkgai
TARGET hhhhhh hhhhhh hhhhhhhh hhhhhhhh hhhhh
2b2fA hhhhhhhhh hhhhhhh hhhhhhhh hhhhhhhh hhhhh
TARGET 291 WVGLGAGLIY LAFSKLMIRL KIDDPLDAFA VHAGGGFWGL MSSSIISHGG
2b2fA 274 viglvagivc ylamdfrikk kidesldawa ihgigglwgs vavgilanpe
TARGET hhhhhhhhhh hhhhhhhhhh hhh hhh hhhh hhhhsssss
2b2fA hhhhhhhhhh hhhhhhhhhh hhh hhhhhhhhhh hhhhhh
TARGET 341 VAYALADAVS GAKNSGDHLT QAFAQLGWQM ICALAIIAWS LGVMLPIFWI
2b2fA 324 v-----ngya gllfgnpql- -----lvsql iavasttaya flvtlilaka
TARGET ss sss hhhh hhhhhhhhhh hhhhhhhhhh
2b2fA hh hhhhh hhhhhhhhhh hhhhhhhhhh
TARGET 391 LKKTGKLRVS EEVEINGLDV FKHGEMAY
2b2fA 363 vdaavglrvs sqeeyvgldl sqheevayt
TARGET hhhh sss hhhhh hh hh
2b2fA hhhh sss hhhhh hh hh
Template's ligands section
Template without ligands.
No ligands were included in the model.
Quaternary Structure Annotation of the Template
2b2f is annotated as TRIMER
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: 2b2f.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 (=TRIMER)
The target structure was calculated as SINGLE CHAIN
The corresponding reliability score is 0.424 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:371baa3844a38e5adb5087f9cc5c2711 on BC2-cluster at Wed Feb 20 13:04:08
2013
- Analyze BLAST summary ...
- No templates found with BLAST (seqid-cutoff: 60): go to HHSEARCH
- Run HHSearch to detect more templates...
FATAL - No templates found in HHSEARCH, strange
- No template with B found
- No template with B found
- No template with B found
- No template with G found
- No template with H found
- No template with I found
- No template with J found
- No template with K found
- No template with L 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 2b2hA (31-448) was not successful go to next best template
- ***************************************************************
- building model based on 2b2fA (31-448) 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:371baa3844a38e5adb5087f9cc5c2711 on BC2-cluster at Wed Feb 20 13:15:58
2013
Template Search
no data available!
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.