SWISS-MODEL Repository
Uniprot features:
SWISS-MODEL Repository - Model Details
Model Overview
Sequence
| UniProt | Q9WVL2 |
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 ] |
Alignment
TARGET 1 QQLEIE NRIQGLHVDI EFLVRSIRQL KDEQDVFSFR YTVFSLKKTS
1bf5A 136 ld--kqkeld skvrnvkdkv mcieheiksl edlqdeydfk cktl------
TARGET hhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh hhhsssssss
1bf5A h hhhhhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh hhhh
TARGET 47 SSDPHQSQQA HVVQATANKV DRMRKEV-LD ISKGLVGRLT TLVDLLLPKL
1bf5A 178 -----qnreh lllkkmylml dnkrkevvhk iiellnvtel tqnalindel
TARGET sssssss hhhh hhhhhh hhhhhhhhhh hhhhhhhhhh
1bf5A hh hhh hhh hhhhhhhhhh hhhhhhhhhh hhhhhhhhhh
TARGET 96 DEWKVQQQKS CIGAPPPVKS AAEQLEQWLT AGAKFLFHLR QLLKQLKEMS
1bf5A 237 vewkrrqqsa ciggpp--na cldqlqnwft ivaeslqqvr qqlkkleele
TARGET hhhhhhhhhh hhhhhhhh hhhhhhhhhh hhhhhhhhh
1bf5A hhhhhhhhhh hhhhhhhh hhhhhhhhhh hhhhhhhhhh
TARGET 146 -CLRYQGDMF AKGVDLRNAQ VMELLQRLLQ RSFVVETQPC MPQTLHRPLI
1bf5A 285 qkytyehdpi tknkqvlwdr tfslfqqliq ssfvverqpc mpthpqrplv
TARGET hhhhhhhh hhhhhhhhhh hsssss ss
1bf5A hh hhhhhhhh hhhhhhhhhh hsssss ss
TARGET 195 LKTGNKFTVR TRLLVRLQEG SESLKAEVSV DRNSD----L PGFRKFNILT
1bf5A 335 lktgvqftvk lrllvklqel nynlkvkvlf dkdvnerntv kgfrkfnilg
TARGET sss ss ssss sssssss s sssss
1bf5A sss ss ssss sssssss s hhhh sssss
TARGET 241 SNQKTLTPEK GQRQGLIWDF GFLTLVEQRA VGAGKGNNKG PLAVTEELHV
1bf5A 385 thtkvmnmee stngslaaef rhlqlkeqk- -nagtrtneg plivteelhs
TARGET sssss sssss sssss s
1bf5A sssss sssss sssss s
TARGET 291 ISFVVEYTYQ GLKMKLQTDT LPVVIISNMN QLSFAWASIL WFNMLSPNPK
1bf5A 433 lsfetqlcqp glvidletts lpvvvisnvs qlpsgwasil wynmlvaepr
TARGET sssssssss sssssssss sss hhhhhhhh hhhh
1bf5A sssssssss sssssssss sss hhhhhhhh hhhh
TARGET 341 NQQFFCQAPK APWSLLGPVL SWQFSSYVAR GLDSEQLGML RTKLFGKSCK
1bf5A 483 nlsffltppc arwaqlsevl swqfssvtkr glnvdqlnml gekllgpnas
TARGET ssshhhhhhh hhhhh hhhhhhh h
1bf5A ssshhhhhhh hhh h hhhhhhh
TARGET 391 MEDALLSWVD FCKRESPPGK IPFWTWLDKI LELVHDHLKD LWKDGRIMGF
1bf5A 533 -pdglipwtr fckenindkn fpfwlwiesi lelikkhllp lwndgcimgf
TARGET sss hhh h hhhhhhh hhhh hhh hhh
1bf5A sss hhh h hhhhhhh hhhh hhh hhh
TARGET 441 VSRNQERRLL KKMLSGTFLL RFSETS-EGG ITCSWVEHQ- DDHKVEIYSV
1bf5A 582 iskererall kdqqpgtfll rfsessrega itftwversq nggepdfhav
TARGET hhhhhhh ss sss s ssss
1bf5A hhhhhhh ss sss s ssss
TARGET 489 QPYTKEVLQS LPLTEIIRHY QVLAEENIPE NPLRFLYPRI PRDEAFGCYY
1bf5A 632 epytkkelsa vtfpdiirny kvmaaenipe nplkylypni dkdhafgkyy
TARGET hhhh hhhh
1bf5A hhhh hhhhh
TARGET 539 QEKVNLEEQE EYLKHKLIVI S
1bf5A 682 srg------- -xiktelisv s-
TARGET
1bf5A
Template's ligands section
Ligands in the template:DC : 2,DG : 1,DT : 4.
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
1bf5 is annotated as 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: 1bf5.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 0.238 (>0.5 indicates similarity)
Template Selection
- Start SMR-Pipeline for:2c35d1d3cbcdb01106aa0a6291d6552b on BC2-cluster at Tue May 7 17:10:33
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 modified template library
- Summarize templates:
- No template with A found
- No template with B found
- No template with C found
- Proof template(s) selection compared to previous Repository update
- Different number of templates selected (old0 vs new:3): model based on new templates
- Send 3 Templates for modeling
- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
- ************************************************
- building model based on 1bf5A (140-698) was successful
- ***********************************************************
- building model based on 1yvlB (2-677) was successful
- *****
- building model based on 2ka4B (855-908) 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:2c35d1d3cbcdb01106aa0a6291d6552b on BC2-cluster at Tue May 7 17:41:52
2013
Template Search
| Template Description |
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1bf5: TYROSINE PHOSPHORYLATED STAT-1/DNA COMPLEX Solved by: X-RAY, Resolution: 2.90A, Identified by HHSEARCH |
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1yvl: STRUCTURE OF UNPHOSPHORYLATED STAT1 Solved by: X-RAY, Resolution: 3.00A, Identified by HHSEARCH |
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1bg1: TRANSCRIPTION FACTOR STAT3B/DNA COMPLEX Solved by: X-RAY, Resolution: 2.58A, Identified by HHSEARCH |
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4e68: UNPHOSPHORYLATED STAT3B CORE PROTEIN BINDING TO DSDNA Solved by: X-RAY, Resolution: 2.58A, Identified by HHSEARCH |
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3cwg: UNPHOSPHORYLATED MOUSE STAT3 CORE FRAGMENT Solved by: X-RAY, Resolution: 3.05A, Identified by HHSEARCH |
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1bgf: STAT-4 N-DOMAIN Solved by: X-RAY, Resolution: 1.45A, Identified by HHSEARCH |
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2ka4: NMR STRUCTURE OF THE CBP-TAZ1/STAT2-TAD COMPLEX Solved by: NMR, Identified by HHSEARCH |
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1y1u: STRUCTURE OF UNPHOSPHORYLATED STAT5A Solved by: X-RAY, Resolution: 3.21A, Identified by HHSEARCH |
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2c9w: CRYSTAL STRUCTURE OF SOCS-2 IN COMPLEX WITH ELONGIN-B AND ELONGIN-C AT 1.9A RESOLUTION Solved by: X-RAY, Resolution: 1.90A, Identified by HHSEARCH |
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1uur: STRUCTURE OF AN ACTIVATED DICTYOSTELIUM STAT IN ITS DNA- UNBOUND FORM Solved by: X-RAY, Resolution: 2.70A, Identified by HHSEARCH |
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1uus: STRUCTURE OF AN ACTIVATED DICTYOSTELIUM STAT IN ITS DNA- UNBOUND FORM Solved by: X-RAY, Resolution: 2.80A, 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.