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 VKEGK AEILFPKKET -VFYNPIQQF NRDLSVTCIK AWDNLYGEEC
2ejuA 3 lie--vqegk akilipkads pvfynprmal nrdivvvll- ----------
TARGET sss sss h hhhhhhhh sssss
2ejuA ss sss sssss h hhhhhhhh
TARGET 45 GQKRNNKKSK KKRCAETNDD SSKRQKMGNG SPKEAVGNSN RNEPYINILE
2ejuA 44 ---------- ---------- ---------- ---------n ilnpki-vld
TARGET sss sss sssss sssss
2ejuA h ss sss
TARGET 95 ALSATGLRAI RYAHEIPHVR EVIANDLLPE AVESIKRNVE YNSV------
2ejuA 54 alsatgirgi rfaletp-ae evwlndised ayelmkrnvm lnfdgelres
TARGET hhhh hhhh s ssssss hh hhhhhhhhhh
2ejuA hhhh hhhh s ssssss hh hhhhhhhhhh sss
TARGET 139 --------EN IVKPNLDDAN VLMYRNKATN NKFHVIDLDP YGTVTPFVDA
2ejuA 103 kgrailkgek tivinhddan rlmaer---h ryfhfidldp fgspmefldt
TARGET sssssss hh hhhhhh sssss hhh
2ejuA sssssss s sssssss hh hhhhh sssss hhh
TARGET 181 AIQSIEEGGL MLVTCTDLSV LAGNGYPEKC FALYGGANMV SHESTHESAL
2ejuA 150 alrsakrrgi lgvtatdgap lcg-ahprac lrkylavpl- rgelchevgt
TARGET hhhh ss sssss hh h hhhh hhh hhhhhhh
2ejuA h ss sssss hh h hhhh hhhh hhhhhhh
TARGET 231 RLVLNLLKQT AAKYKKTVEP LLSLSIDFYV RVFVKVKTSP IEVKNVMSST
2ejuA 198 rilvgviary aakydlgidv ilayykdhyf rafvklkdg- ----------
TARGET hhhhhhhhhh hhh ssssss ssssss ss sssssssss sss
2ejuA hhhhhhhhhh hhh ssssss ssssss ss sssssssss
TARGET 281 MTTYHCSRCG SYHNQPLGRI SQREGRNNKT FTKYSVAQGP PVDTKCKFCE
2ejuA 237 ------arkg detleklgyi y----fddkt -gkfeleqg- -------flp
TARGET sss hh hhhhhsssss sss sssss
2ejuA hhhh hhhhhsssss s ss sssssss
TARGET 331 GTYHLAGPMY AGPLHNKEFI EEVLRINKEE HRDQDDTYGT RKRIEGMLSL
2ejuA 268 trpnaygpvw lgplkdekiv skmvk----- -eaeslslar kkqalkllkm
TARGET ss s ssshhhh hhhhhhhhhh
2ejuA ss s ssshhhh hhhhh hhhh hhhhhhhhhh
TARGET 381 AKNELSDSPF YFSPNHIASV IKLQVPPLKK VVAGLGSLGF ECSLTHAQPS
2ejuA 312 idqel-dipl fydthaigrr lkietkkvee iisalreqgy eatrthfspt
TARGET hhh hhhhhhh h hhh hhhhhhhh sss
2ejuA hhh ssshhhhhh h sss hhh hhhhhhhh sss s
TARGET 431 SLKTNAPWD -------
2ejuA 361 giktsapyev fietikr
TARGET sss
2ejuA sssss hhh hhhhsss
Template's ligands section
Ligands in the template:ALA : 1,GOL : 1.
The template contains ligands that are not yet part of the pipeline. Ligands which are currently assessed are listed in the help page.
No ligands were included in the model.
Quaternary Structure Annotation of the Template
2eju 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: 2eju.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 0.228 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:68f0182e690fd8f17436e60420a9cfed on BC2-cluster at Mon Feb 18 18:11:31
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 modfied template library
- Summarize templates:
- 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 2ejuA (45-483) 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:68f0182e690fd8f17436e60420a9cfed on BC2-cluster at Mon Feb 18 18:15:03
2013
Template Search
| Template Description |
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2igt: CRYSTAL STRUCTURE OF THE SAM DEPENDENT METHYLTRANSFERASE FROM AGROBACTERIUM TUMEFACIENS Solved by: X-RAY, Resolution: 1.89A, Identified by HHSEARCH |
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4hc4: HUMAN HMT1 HNRNP METHYLTRANSFERASE-LIKE PROTEIN 6 (S. CERE Solved by: X-RAY, Resolution: 1.97A, Identified by HHSEARCH |
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4htf: CRYSTAL STRUCTURE OF S-ADENOSYLMETHIONINE-DEPENDENT METHYLFROM ESCHERICHIA COLI IN COMPLEX WITH S-ADENOSYLMETHIONIN Solved by: X-RAY, Resolution: 1.60A, Identified by HHSEARCH |
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3hm2: CRYSTAL STRUCTURE OF PUTATIVE PRECORRIN-6Y C5,15- METHYLTRANSFERASE TARGETED DOMAIN FROM CORYNEBACTERIUM DIPHTHERIAE Solved by: X-RAY, Resolution: 2.21A, 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.