SWISS-MODEL Repository
Uniprot features:
SWISS-MODEL Repository - Model Details
Model Overview
Sequence
| UniProt | Q304B9 |
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 YLIGV GSYDITGPAA DVNMMGYANS DQIASGIHFR LRARAFIVAE
2zxcB 2 dlp--yrfgl gkaditgeaa evgmmgyssl eqktagihmr qwarafviee
TARGET sssss sssss ss sssss sssss ssssssssss
2zxcB s sssss sssss ss sssss ssssss ssssssssss
TARGET 46 P-QGNRVVFV NLDACMASQI VTIKVLERLK ARYGELYTEK NVAISGIHTH
2zxcB 50 aasgrrlvyv ntdlgmifqa vhlkvlarlk akypgvyden nvmlaathth
TARGET ssssss ssss hh hhhhhhhhhh hh sssssssss
2zxcB s ssssss ssss hh hhhhhhhhhh hh sssssssss
TARGET 95 AGPGGYLQYV TYIVTSLGFV RQSFDVVVNG IEQSIVQAHE SLRPGSAFVN
2zxcB 100 sgpggfshya mynlsvlgfq ektfnaivdg ivrsieraqa rlqpgrlfyg
TARGET sss hhh hhhhhhhhhh hhhhhhhhh ssssssss
2zxcB sss hhhsss hhhhhhhhhh hhhhhhhhhh ssssssss
TARGET 145 KGDLLDAGVN RSPSSYLNNP AAERSKYKYD VDKEMTLVKF VDSQLGPTGS
2zxcB 150 sgelrnasrn rsllshlknp --diagyedg idpqmsvlsf vdangelaga
TARGET ssss hhhhh ssssssss ss sssss
2zxcB ssss ss s hhhhh ssssssss ss sssss
TARGET 195 FNWFATHGTS MSRTNSLISG DNKGAAARFM E -------- ----------
2zxcB 198 iswfpvhsts mtnanhlisp dnkgyasyhw ehdvsrksgf vaafaqtnag
TARGET sss hhhhhhhhh h
2zxcB ssss hhhhhhhhh hhh sssss
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 248 nlspnlnlkp gsgpfdnefd ntreiglrqf akayeiagqa qeevlgelds
TARGET
2zxcB sss hhh hhhhhhhhhh hhhhhhhh sss ssss
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 298 rfrfvdftrl pirpeftdgq prqlctaaig tslaagsted gpgplgleeg
TARGET
2zxcB sssssss s ss sss ss s
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 348 nnpflsalgg lltgvppqel vqcqaektil adtgnkkpyp wtptvlpiqm
TARGET
2zxcB hhhhhh hhh hhh sss sssssss
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 398 frigqlellg apaeftvmag vrirravqaa seaagirhvv fngyanayas
TARGET
2zxcB ssssssssss s ssshhhh hhhhhhhhh h sss ssssss s
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 448 yvttreeyaa qeyeggstly gpwtqaayqq lfvdmavalr erlpvetsai
TARGET
2zxcB ss hhhhh hhhh hhhhhhh hhhhhhhhhh h
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 498 apdlsccqmn fqtgvvaddp yigksfgdvl qqpresyrig dkvtvafvtg
TARGET
2zxcB ss s sss sss sssssssss
TARGET ---------- ---------- ---------- ---------- ----------
2zxcB 548 hpkndlrtek tflevvnigk dgkqtpvtva tdndwdtqyr wervgisask
TARGET
2zxcB sssssss sss sssss ssss sss
TARGET ---------- ---------- ---------- ---------- -------
2zxcB 598 atiswsippg tepghyyirh ygnaknfwtq kiseiggstr sfevlgt
TARGET
2zxcB sssssss sssssss ssssss sssssssss ssss
Template's ligands section
Ligands in the template:2ED : 1,DMS : 1,FMT : 2,MG : 1,ZN : 1.
Ligands in the template that will be assessed: MG654, ZN647.
Model's ligands section
ZN647
Not all the residues interacting with the ligand are completely conserved between model and template.
No RMSD calculation will be performed.
Given the properties calculated previously, the ligand B.ZN647 will not be included in the final model.
ZN647: conservation:False, RMSD:False, included: False
MG654
Not all the residues interacting with the ligand are completely conserved between model and template.
No RMSD calculation will be performed.
Given the properties calculated previously, the ligand B.MG654 will not be included in the final model.
MG654: conservation:False, RMSD:False, included: False
No ligands were included in the model.
Quaternary Structure Annotation of the Template
2zxc 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: 2zxc.pdb2.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 0.244 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:99d041a3071969c7bae78f9c73c23604 on BC2-cluster at Tue Feb 19 16:17:32
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
- 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 2zxcB (26-250) was successful
- ***********************************************
- building model based on 2zxcB (314-757) 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:99d041a3071969c7bae78f9c73c23604 on BC2-cluster at Tue Feb 19 16:20:59
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.