 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q96SN8 from www.uniprot.org...
The NucPred score for your sequence is 0.84 (see score help below)
1 MMDLVLEEDVTVPGTLSGCSGLVPSVPDDLDGINPNAGLGNGLLPNVSEE 50
51 TVSPTRARNMKDFENQITELKKENFNLKLRIYFLEERMQQEFHGPTEHIY 100
101 KTNIELKVEVESLKRELQEREQLLIKASKAVESLAEAGGSEIQRVKEDAR 150
151 KKVQQVEDLLTKRILLLEKDVTAAQAELEKAFAGTETEKALRLRLESKLS 200
201 EMKKMHEGDLAMALVLDEKDRLIEELKLSLKSKEALIQCLKEEKSQMACP 250
251 DENVSSGELRGLCAAPREEKERETEAAQMEHQKERNSFEERIQALEEDLR 300
301 EKEREIATEKKNSLKRDKAIQGLTMALKSKEKKVEELNSEIEKLSAAFAK 350
351 AREALQKAQTQEFQGSEDYETALSGKEALSAALRSQNLTKSTENHRLRRS 400
401 IKKITQELSDLQQERERLEKDLEEAHREKSKGDCTIRDLRNEVEKLRNEV 450
451 NEREKAMENRYKSLLSESNKKLHNQEQVIKHLTESTNQKDVLLQKFNEKD 500
501 LEVIQQNCYLMAAEDLELRSEGLITEKCSSQQPPGSKTIFSKEKKQSSDY 550
551 EELIQVLKKEQDIYTHLVKSLQESDSINNLQAELNKIFALRKQLEQDVLS 600
601 YQNLRKTLEEQISEIRRREEESFSLYSDQTSYLSICLEENNRFQVEHFSQ 650
651 EELKKKVSDLIQLVKELYTDNQHLKKTIFDLSCMGFQGNGFPDRLASTEQ 700
701 TELLASKEDEDTIKIGEDDEINFLSDQHLQQSNEIMKDLSKGGCKNGYLR 750
751 HTESKISDCDGAHAPGCLEEGAFINLLAPLFNEKATLLLESRPDLLKVVR 800
801 ELLLGQLFLTEQEVSGEHLDGKTEKTPKQKGELVHFVQTNSFSKPHDELK 850
851 LSCEAQLVKAGEVPKVGLKDASVQTVATEGDLLRFKHEATREAWEEKPIN 900
901 TALSAEHRPENLHGVPGWQAALLSLPGITNREAKKSRLPILIKPSRSLGN 950
951 MYRLPATQEVVTQLQSQILELQGELKEFKTCNKQLHQKLILAEAVMEGRP 1000
1001 TPDKTLLNAQPPVGAAYQDSPGEQKGIKTTSSVWRDKEMDSDQQRSYEID 1050
1051 SEICPPDDLASLPSCKENPEDVLSPTSVATYLSSKSQPSAKVSVMGTDQS 1100
1101 ESINTSNETEYLKQKIHDLETELEGYQNFIFQLQKHSQCSEAIITVLCGT 1150
1151 EGAQDGLSKPKNGSDGEEMTFSSLHQVRYVKHVKILGPLAPEMIDSRVLE 1200
1201 NLKQQLEEQEYKLQKEQNLNMQLFSEIHNLQNKFRDLSPPRYDSLVQSQA 1250
1251 RELSLQRQQIKDGHGICVISRQHMNTMIKAFEELLQASDVDYCVAEGFQE 1300
1301 QLNQCAELLEKLEKLFLNGKSVGVEMNTQNELMERIEEDNLTYQHLLPES 1350
1351 PEPSASHALSDYETSEKSFFSRDQKQDNETEKTSVMVNSFSQDLLMEHIQ 1400
1401 EIRTLRKRLEESIKTNEKLRKQLERQGSEFVQGSTSIFASGSELHSSLTS 1450
1451 EIHFLRKQNQALNAMLIKGSRDKQKENDKLRESLSRKTVSLEHLQREYAS 1500
1501 VKEENERLQKEGSEKERHNQQLIQEVRCSGQELSRVQEEVKLRQQLLSQN 1550
1551 DKLLQSLRVELKAYEKLDEEHRRLREASGEGWKGQDPFRDLHSLLMEIQA 1600
1601 LRLQLERSIETSSTLQSRLKEQLARGAEKAQEGALTLAVQAVSIPEVPLQ 1650
1651 PDKHDGDKYPMESDNSFDLFDSSQAVTPKSVSETPPLSGNDTDSLSCDSG 1700
1701 SSATSTPCVSRLVTGHHLWASKNGRHVLGLIEDYEALLKQISQGQRLLAE 1750
1751 MDIQTQEAPSSTSQELGTKGPHPAPLSKFVSSVSTAKLTLEEAYRRLKLL 1800
1801 WRVSLPEDGQCPLHCEQIGEMKAEVTKLHKKLFEQEKKLQNTMKLLQLSK 1850
1851 RQEKVIFDQLVVTHKILRKARGNLELRPGGAHPGTCSPSRPGS 1893
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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