SWISS-MODEL Repository
Uniprot features:
SWISS-MODEL Repository - Model Details
Model Overview
Sequence
| UniProt | A2AA28 |
Database: TrEMBL (Unreviewed)  |
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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 LW FHRRSLPGKA VLEVGAGVSL
4hc4A 48 yecysdvsvh eemiadrvrt dayrlg--il rnwaalrgkt vldvgagtgi
TARGET h s sssss h
4hc4A hhhhhhh hhhh hhh hhhhhh hh hhh s sssss h
TARGET 23 PGILAAKCGA -KVILSDSSE FPHCLDICRQ SCQMNNL-PQ VEVVGLTWGH
4hc4A 96 lsifcaqaga rrvyaveas- --aiwqqare vvrfngledr vhvlpgpve-
TARGET hhhhhhhh ssssss hhhhhh hhhhh s ssssss
4hc4A hhhhhhhh ssssss hhhhhhh hhhhh s ssssss
TARGET 71 ISKDILSLPP QDIILGSDVF F---EPEDFE SILATVYFLM QKN ------
4hc4A 142 ---tvelpeq vdaivsewmg ygllhesmls svlhartkwl kegglllpas
TARGET sss hh hhhhhhhh
4hc4A sssss hh hhhhhhhh sss ss
TARGET ---------- ---------- ---------- ---------- ----------
4hc4A 189 aelfivpisd qmlewrlgfw sqvkqhygvd msclegfatr clmghseivv
TARGET
4hc4A sssssssss hhhhhhhhh hhhh hhhhh hh sssss
TARGET ---------- ---------- ---------- ---------- ----------
4hc4A 239 qglsgedvla rpqrfaqlel sragleqele agvggrfrcs cygsapmhgf
TARGET
4hc4A s sss ssssssss hhhhhh h ssssssss s ssssss
TARGET ---------- ---------- ---------- ---------- ----------
4hc4A 289 aiwfqvtfpg gekplvlsts pfhpathwkq allylnepvq veqdtdvsge
TARGET
4hc4A ssssssss sssss s sssss ss s ssssss
TARGET ---------- ---------- ---------- -----
4hc4A 341 itllpsrdnp rrlrvllryk vgdqeektkd famed
TARGET
4hc4A ssssss sssssssss ss ssss ssss
Template's ligands section
Ligands in the template:EDO : 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
4hc4 is annotated as DIMER
PISA was used to annotate the quaternary structure, because the author assignment was not complete
A biological unit file could be identified with the same complex description as the PISA annotation and was used to build the assembly: 4hc4.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 (=DIMER)
The target structure was calculated as SINGLE CHAIN
The corresponding reliability score is 0.06 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:3f11e8b0c0c54d588fa24569f25e9f6f on BC2-cluster at Sat Feb 23 00:10:44
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 G found
- No template with A found
- No template with B found
- No template with E found
- No template with F found
- No template with H found
- No template with C found
- No template with D found
- No template with B found
- No template with D found
- No template with C found
- No template with A 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 4hc4A (77-186) was successful
- ****************************************
- building model based on 2igtC (84-210) 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:3f11e8b0c0c54d588fa24569f25e9f6f on BC2-cluster at Sat Feb 23 00:12:23
2013
Template Search
| Template Description |
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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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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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3ou6: DHPI-SAM COMPLEX Solved by: X-RAY, Resolution: 2.30A, Identified by HHSEARCH |
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3ou2: DHPI-SAH COMPLEX STRUCTURE Solved by: X-RAY, Resolution: 1.50A, Identified by HHSEARCH |
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3ou7: DHPI-SAM-HEP COMPLEX Solved by: X-RAY, Resolution: 2.30A, Identified by HHSEARCH |
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4a6e: CRYSTAL STRUCTURE OF HUMAN N-ACETYLSEROTONIN METHYLTRANSFE(ASMT) IN COMPLEX WITH SAM AND N-ACETYLSEROTONIN Solved by: X-RAY, Resolution: 2.70A, Identified by HHSEARCH |
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4a6d: CRYSTAL STRUCTURE OF HUMAN N-ACETYLSEROTONIN METHYLTRANSFERASE (ASMT) IN COMPLEX WITH SAM Solved by: X-RAY, Resolution: 2.70A, Identified by HHSEARCH |
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4hg2: THE STRUCTURE OF A PUTATIVE TYPE II METHYLTRANSFERASE FROMANAEROMYXOBACTER DEHALOGENANS. 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.