 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q75A34 from www.uniprot.org...
The NucPred score for your sequence is 0.75 (see score help below)
1 MVDFPYSSAPLRTIKEVQFGLFSPEEVRAISVAKIEFPETMDETQMRAKV 50
51 GGLNDPRLGSIDRNFKCQTCGEGMNDCPGHFGHIELAKPVFHIGFISKIK 100
101 KVCECVCMHCGKLLLDEYNELMRQAIKIKDPKRRFNAVWSLCKAKMVCDT 150
151 EVPSEDDPSKYISRGGCGNAQPSIRKDGLSLVGTWKKDKNAEDADQPEKR 200
201 IISAEEILNVFKHISPEDSWRLGFNEDFSRPEWMLLTVLPVPPPPVRPSI 250
251 SFNESQRGEDDLTYKLGDILKANINVQRLEINGSPQHVIQESESLLQFHV 300
301 ATYMDNDIAGQPQAVQKSGRPIKSIRARLKGKEGRIRGNLMGKRVDFSAR 350
351 TVISGDPNLDLDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHP 400
401 GAKYVIRDNGDRIDLRYSKRAGDIQLQYGWKVERHIMDDDPVLFNRQPSL 450
451 HKMSMMAHRVKVMPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEETRAE 500
501 LSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKMTLRDTFIELDQVLNML 550
551 YWIPDWDGVIPTPTILKPKPLWSGKQLLSMAIPSGIHLQRFDEGTTYLSP 600
601 KDNGMLIIDGQIIFGVVDKKTVGSSSGGLIHVVTREKGPEVCAKLFGNIQ 650
651 KVVNYWLLHNGFSIGIGDTIADEKTMREITDAIALAKKKVEEVTKEAQAN 700
701 LLTAKHGMTLRESFEDNVVRYLNEARDKAGRSAEVNLKDLNNVKQMVSAG 750
751 SKGSFINIAQMSACVGQQSVEGKRIAFGFADRTLPHFSKDDYSPESKGFV 800
801 ENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMV 850
851 HYDGTTRNSLGNIIQFVYGEDGMDAAHIEKQSIDTIPGSDLAFEKRYRID 900
901 LLNPNYALDPNLLESGTEIVGDLKLQNLLDEEYKQLVQDRHFLRKIFMDG 950
951 EHNWPLPVNIRRIIQNAQQTFRIDSTKPTDLSIQDVVQGVRGLQERLLVL 1000
1001 RGKSQILQEAQENAITLFCCLLRSRLATRRVITEYRLTKQTFEWVLNNIE 1050
1051 AQFLRSIVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPR 1100
1101 LKEILNVAKNMKTPSLTVYLEESYATDQEKAKLIRSAIEHTTLKSVTVAS 1150
1151 EIYYDPDPSSTVIEEDEEIIQLHFSLMDEETEASLKHQSPWLLRLELDRV 1200
1201 AMTDKDLTMGQVGEKIKETFKNDLFVIWSEDNAEKLIIRCRVVRDPKTLD 1250
1251 AEAEAEEDHMLKKIENTMLESITLRGVQDITRVVMMKYDRKVPSETGEYH 1300
1301 KIPEWVLETDGVNLSEVMSVPGVDPTRIYTNSFIDIMNVLGIEAGRAALY 1350
1351 KEVYNVIASDGSYVNYRHMALLVDVMTSQGFLMSVTRHGFNRADTGALMR 1400
1401 CSFEETVEILFEAGAAAELDDCSGVSENVILGQMAPIGTGSFDVMIDDES 1450
1451 LIKYMPEQKLSTAVEVNDGGATPYNSDAGLVNTKVDIKDELMFSPLVEAG 1500
1501 TSDAIASGGFTAYGGADYGGATSPFSGYGNGPTSPGFGDVSSPGFSPTSP 1550
1551 AYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1600
1601 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1650
1651 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1700
1701 PTSPSYSPTSPSYSPTSPQYSPRSPSYSPSFNNNDKEQKDENGTH 1745
Positively and negatively influencing subsequences are coloured according to the following scale:
(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)
What does the NucPred score mean?
| You have to decide on a NucPred score threshold. Sequences which score greater than or equal to this threshold are predicted to spend some time in the nucleus. Higher thresholds yield fewer predicted nuclear proteins, but these predictions are more accurate (you can have higher confidence in them). The table below gives more details of the performance of NucPred estimated using the sequences it was trained on (by cross-validation). Another benchmark is available in the Bioinformatics 2007 paper. |
| NucPred score threshold | Specificity | Sensitivity |
| see above | fraction of proteins predicted to be nuclear that actually are nuclear | fraction of true nuclear proteins that are predicted (coverage) |
| 0.10 | 0.45 | 0.88 |
| 0.20 | 0.52 | 0.83 |
| 0.30 | 0.57 | 0.77 |
| 0.40 | 0.63 | 0.69 |
| 0.50 | 0.70 | 0.62 |
| 0.60 | 0.71 | 0.53 |
| 0.70 | 0.81 | 0.44 |
| 0.80 | 0.84 | 0.32 |
| 0.90 | 0.88 | 0.21 |
| 1.00 | 1.00 | 0.02 |
| Sequences which score >= 0.8 with NucPred and which
are predicted by PredictNLS to contain an NLS have been shown to be 93% correct with a coverage of 16%. (PredictNLS by itself is 87% correct with 26% coverage on the same data.) |
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