| Protein: | UPF3 |
| Organism: | Saccharomyces cerevisiae |
| Length: | 387 amino acids |
| Reference: | Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076 |
Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for UPF3.
| Description | E-value | Query Range |
Subject Range |
|
|
0.0 | [1..387] | [1..387] |
|
|
4.0E-61 | [172..335] | [99..245] |
|
|
2.0E-55 | [183..335] | [8..144] |
|
|
5.0E-35 | [193..333] | [161..276] |
|
Region A: Residues: [1-60] |
1 11 21 31 41 51
| | | | | |
1 MSNVAGELKN SEGKKKGRGN RYHNKNRGKS KNETVDPKKN ENKVNNATNA THNNSKGRRN 60
61
|
| Detection Method: |  |
Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.
Found no confident structure predictions for this domain.
|
Region A: Residues: [61-280] |
1 11 21 31 41 51
| | | | | |
1 NKKRNREYYN YKRKARLGKS TENEGFKLVI RLLPPNLTAD EFFAILRDNN NDDGDKQDIQ 60
61 GKLKYSDWCF FEGHYSSKVF KNSTYSRCNF LFDNLSDLEK CANFIKTCKF IDNKDNITIP 120
121 DMKLSPYVKK FTQTSKKDAA LVGTIEEDEI FKTFMNSMKQ LNENDEYSFQ DFSVLKSLEK 180
181 EFSKSIELEN KIAERTERVL TELVGTGDKV KNKNKKKKNK
|
| Detection Method: | |
| Confidence: | 121.070581 |
| Match: | PF03467 |
| Description: | Smg-4/UPF3 family |
Shown below is our most confident prediction for this domain.
Click here to view all matches.
Found no confident structure predictions for this domain.
| Term | Confidence | Notes |
| RNA binding | 6.32219487559982 | bayes_pls_golite062009 |
| mRNA binding | 4.87640532914983 | bayes_pls_golite062009 |
| 3.85463717617256 | bayes_pls_golite062009 | |
| nucleic acid binding | 3.74344299117899 | bayes_pls_golite062009 |
| binding | 2.88749864706998 | bayes_pls_golite062009 |
| single-stranded RNA binding | 2.55628738360472 | bayes_pls_golite062009 |
| poly-pyrimidine tract binding | 2.0656412663177 | bayes_pls_golite062009 |
| ubiquitin-protein ligase activity | 1.79747940153321 | bayes_pls_golite062009 |
| structural molecule activity | 1.57342338925793 | bayes_pls_golite062009 |
| small conjugating protein ligase activity | 1.54918359800898 | bayes_pls_golite062009 |
| poly(U) RNA binding | 1.23190154914055 | bayes_pls_golite062009 |
| protein binding | 1.19509385638328 | bayes_pls_golite062009 |
| transcription regulator activity | 1.10029555513317 | bayes_pls_golite062009 |
| acid-amino acid ligase activity | 1.0920515408093 | bayes_pls_golite062009 |
| DNA binding | 0.984725930713243 | bayes_pls_golite062009 |
| snRNA binding | 0.840923669704678 | bayes_pls_golite062009 |
| snoRNA binding | 0.516511855622792 | bayes_pls_golite062009 |
| hydrolase activity | 0.418157930682314 | bayes_pls_golite062009 |
| transcription factor activity | 0.255891228964936 | bayes_pls_golite062009 |
| mRNA 3'-UTR binding | 0.229644510503376 | bayes_pls_golite062009 |
| ligase activity, forming carbon-nitrogen bonds | 0.205114038263623 | bayes_pls_golite062009 |
| ligase activity | 0.115699011007988 | bayes_pls_golite062009 |
|
Region A: Residues: [281-387] |
1 11 21 31 41 51
| | | | | |
1 NAKKKFKEEE ASAKIPKKKR NRGKKKRENR EKSTISKTKN SNVVIIEEAG KEVLKQRKKK 60
61 MLLQEKLKIS NSSQPQSSSA QTQPSFQPKE NLFVPRVKIL HRDDTKK
|
| Detection Method: | |
Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.
Found no confident structure predictions for this domain.
|
Region A: Residues: [303-387] |
1 11 21 31 41 51
| | | | | |
1 GKKKRENREK STISKTKNSN VVIIEEAGKE VLKQRKKKML LQEKLKISNS SQPQSSSAQT 60
61 QPSFQPKENL FVPRVKILHR DDTKK
|
| Detection Method: | |
Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.
Found no confident structure predictions for this domain.
