 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q9HC84 from www.uniprot.org...
The NucPred score for your sequence is 0.44 (see score help below)
1 MGAPSACRTLVLALAAMLVVPQAETQGPVEPSWENAGHTMDGGAPTSSPT 50
51 RRVSFVPPVTVFPSLSPLNPAHNGRVCSTWGDFHYKTFDGDVFRFPGLCN 100
101 YVFSEHCRAAYEDFNVQLRRGLVGSRPVVTRVVIKAQGLVLEASNGSVLI 150
151 NGQREELPYSRTGLLVEQSGDYIKVSIRLVLTFLWNGEDSALLELDPKYA 200
201 NQTCGLCGDFNGLPAFNEFYAHNARLTPLQFGNLQKLDGPTEQCPDPLPL 250
251 PAGNCTDEEGICHRTLLGPAFAECHALVDSTAYLAACAQDLCRCPTCPCA 300
301 TFVEYSRQCAHAGGQPRNWRCPELCPRTCPLNMQHQECGSPCTDTCSNPQ 350
351 RAQLCEDHCVDGCFCPPGTVLDDITHSGCLPLGQCPCTHGGRTYSPGTSF 400
401 NTTCSSCTCSGGLWQCQDLPCPGTCSVQGGAHISTYDEKLYDLHGDCSYV 450
451 LSKKCADSSFTVLAELRKCGLTDNENCLKAVTLSLDGGDTAIRVQADGGV 500
501 FLNSIYTQLPLSAANITLFTPSSFFIVVQTGLGLQLLVQLVPLMQVFVRL 550
551 DPAHQGQMCGLCGNFNQNQADDFTALSGVVEATGAAFANTWKAQAACANA 600
601 RNSFEDPCSLSVENENYARHWCSRLTDPNSAFSRCHSIINPKPFHSNCMF 650
651 DTCNCERSEDCLCAALSSYVHACAAKGVQLSDWRDGVCTKYMQNCPKSQR 700
701 YAYVVDACQPTCRGLSEADVTCSVSFVPVDGCTCPAGTFLNDAGACVPAQ 750
751 ECPCYAHGTVLAPGEVVHDEGAVCSCTGGKLSCLGASLQKSTGCAAPMVY 800
801 LDCSNSSAGTPGAECLRSCHTLDVGCFSTHCVSGCVCPPGLVSDGSGGCI 850
851 AEEDCPCVHNEATYKPGETIRVDCNTCTCRNRRWECSHRLCLGTCVAYGD 900
901 GHFITFDGDRYSFEGSCEYILAQDYCGDNTTHGTFRIVTENIPCGTTGTT 950
951 CSKAIKLFVESYELILQEGTFKAVARGPGGDPPYKIRYMGIFLVIETHGM 1000
1001 AVSWDRKTSVFIRLHQDYKGRVCGLCGNFDDNAINDFATRSRSVVGDALE 1050
1051 FGNSWKLSPSCPDALAPKDPCTANPFRKSWAQKQCSILHGPTFAACRSQV 1100
1101 DSTKYYEACVNDACACDSGGDCECFCTAVAAYAQACHDAGLCVSWRTPDT 1150
1151 CPLFCDFYNPHGGCEWHYQPCGAPCLKTCRNPSGHCLVDLPGLEGCYPKC 1200
1201 PPSQPFFNEDQMKCVAQCGCYDKDGNYYDVGARVPTAENCQSCNCTPSGI 1250
1251 QCAHSLEACTCTYEDRTYSYQDVIYNTTDGLGACLIAICGSNGTIIRKAV 1300
1301 ACPGTPATTPFTFTTAWVPHSTTSPALPVSTVCVREVCRWSSWYNGHRPE 1350
1351 PGLGGGDFETFENLRQRGYQVCPVLADIECRAAQLPDMPLEELGQQVDCD 1400
1401 RMRGLMCANSQQSPPLCHDYELRVLCCEYVPCGPSPAPGTSPQPSLSAST 1450
1451 EPAVPTPTQTTATEKTTLWVTPSIRSTAALTSQTGSSSGPVTVTPSAPGT 1500
1501 TTCQPRCQWTEWFDEDYPKSEQLGGDVESYDKIRAAGGHLCQQPKDIECQ 1550
1551 AESFPNWTLAQVGQKVHCDVHFGLVCRNWEQEGVFKMCYNYRIRVLCCSD 1600
1601 DHCRGRATTPPPTTELETATTTTTQALFSTPQPTSSPGLTRAPPASTTAV 1650
1651 PTLSEGLTSPRYTSTLGTATTGGPTTPAGSTEPTVPGVATSTLPTRSALP 1700
1701 GTTGSLGTWRPSQPPTLAPTTMATSRARPTGTASTASKEPLTTSLAPTLT 1750
1751 SELSTSQAETSTPRTETTMSPLTNTTTSQGTTRCQPKCEWTEWFDVDFPT 1800
1801 SGVAGGDMETFENIRAAGGKMCWAPKSIECRAENYPEVSIDQVGQVLTCS 1850
1851 LETGLTCKNEDQTGRFNMCFNYNVRVLCCDDYSHCPSTPATSSTATPSST 1900
1901 PGTTWILTKPTTTATTTASTGSTATPTSTLRTAPPPKVLTTTATTPTVTS 1950
1951 SKATPSSSPGTATALPALRSTATTPTATSVTPIPSSSLGTTWTRLSQTTT 2000
2001 PTATMSTATPSSTPETAHTSTVLTATATTTGATGSVATPSSTPGTAHTTK 2050
2051 VPTTTTTGFTATPSSSPGTALTPPVWISTTTTPTTRGSTVTPSSIPGTTH 2100
2101 TATVLTTTTTTVATGSMATPSSSTQTSGTPPSLTTTATTITATGSTTNPS 2150
2151 STPGTTPIPPVLTTTATTPAATSNTVTPSSALGTTHTPPVPNTMATTHGR 2200
2201 SLPPSSPHTVRTAWTSATSGILGTTHITEPSTVTSHTLAATTGTTQHSTP 2250
2251 ALSSPHPSSRTTESPPSPGTTTPGHTTATSRTTATATPSKTRTSTLLPSS 2300
2301 PTSAPITTVVTMGCEPQCAWSEWLDYSYPMPGPSGGDFDTYSNIRAAGGA 2350
2351 VCEQPLGLECRAQAQPGVPLRELGQVVECSLDFGLVCRNREQVGKFKMCF 2400
2401 NYEIRVFCCNYGHCPSTPATSSTAMPSSTPGTTWILTELTTTATTTESTG 2450
2451 STATPSSTPGTTWILTEPSTTATVTVPTGSTATASSTQATAGTPHVSTTA 2500
2501 TTPTVTSSKATPFSSPGTATALPALRSTATTPTATSFTAIPSSSLGTTWT 2550
2551 RLSQTTTPTATMSTATPSSTPETVHTSTVLTTTATTTGATGSVATPSSTP 2600
2601 GTAHTTKVLTTTTTGFTATPSSSPGTARTLPVWISTTTTPTTRGSTVTPS 2650
2651 SIPGTTHTPTVLTTTTTTVATGSMATPSSSTQTSGTPPSLTTTATTITAT 2700
2701 GSTTNPSSTPGTTPIPPVLTTTATTPAATSSTVTPSSALGTTHTPPVPNT 2750
2751 TATTHGRSLSPSSPHTVRTAWTSATSGTLGTTHITEPSTGTSHTPAATTG 2800
2801 TTQHSTPALSSPHPSSRTTESPPSPGTTTPGHTRATSRTTATATPSKTRT 2850
2851 STLLPSSPTSAPITTVVTMGCEPQCAWSEWLDYSYPMPGPSGGDFDTYSN 2900
2901 IRAAGGAVCEQPLGLECRAQAQPGVPLRELGQVVECSLDFGLVCRNREQV 2950
2951 GKFKMCFNYEIRVFCCNYGHCPSTPATSSTATPSSTPGTTWILTEQTTAA 3000
3001 TTTATTGSTAIPSSTPGTAPPPKVLTSTATTPTATSSKATSSSSPRTATT 3050
3051 LPVLTSTATKSTATSFTPIPSFTLGTTGTLPEQTTTPMATMSTIHPSSTP 3100
3101 ETTHTSTVLTTKATTTRATSSMSTPSSTPGTTWILTELTTAATTTAATGP 3150
3151 TATPSSTPGTTWILTEPSTTATVTVPTGSTATASSTRATAGTLKVLTSTA 3200
3201 TTPTVISSRATPSSSPGTATALPALRSTATTPTATSVTAIPSSSLGTAWT 3250
3251 RLSQTTTPTATMSTATPSSTPETVHTSTVLTTTTTTTRATGSVATPSSTP 3300
3301 GTAHTTKVPTTTTTGFTATPSSSPGTALTPPVWISTTTTPTTRGSTVTPS 3350
3351 SIPGTTHTATVLTTTTTTVATGSMATPSSSTQTSGTPPSLTTTATTITAT 3400
3401 GSTTNPSSTPGTTPIPPVLTTTATTPAATSSTVTPSSALGTTHTPPVPNT 3450
3451 TATTHGRSLPPSSPHTVRTAWTSATSGILGTTHITEPSTVTSHTPAATTS 3500
3501 TTQHSTPALSSPHPSSRTTESPPSPGTTTPGHTRGTSRTTATATPSKTRT 3550
3551 STLLPSSPTSAPITTVVTTGCEPQCAWSEWLDYSYPMPGPSGGDFDTYSN 3600
3601 IRAAGGAVCEQPLGLECRAQAQPGVPLRELGQVVECSLDFGLVCRNREQV 3650
3651 GKFKMCFNYEIRVFCCNYGHCPSTPATSSTATPSSTPGTTWILTKLTTTA 3700
3701 TTTESTGSTATPSSTPGTTWILTEPSTTATVTVPTGSTATASSTQATAGT 3750
3751 PHVSTTATTPTVTSSKATPFSSPGTATALPALRSTATTPTATSFTAIPSS 3800
3801 SLGTTWTRLSQTTTPTATMSTATPSSTPETAHTSTVLTTTATTTRATGSV 3850
3851 ATPSSTPGTAHTTKVPTTTTTGFTVTPSSSPGTARTPPVWISTTTTPTTS 3900
3901 GSTVTPSSVPGTTHTPTVLTTTTTTVATGSMATPSSSTQTSGTPPSLITT 3950
3951 ATTITATGSTTNPSSTPGTTPIPPVLTTTATTPAATSSTVTPSSALGTTH 4000
4001 TPPVPNTTATTHGRSLSPSSPHTVRTAWTSATSGTLGTTHITEPSTGTSH 4050
4051 TPAATTGTTQHSTPALSSPHPSSRTTESPPSPGTTTPGHTTATSRTTATA 4100
4101 TPSKTRTSTLLPSSPTSAPITTVVTTGCEPQCAWSEWLDYSYPMPGPSGG 4150
4151 DFDTYSNIRAAGGAVCEQPLGLECRAQAQPGVPLGELGQVVECSLDFGLV 4200
4201 CRNREQVGKFKMCFNYEIRVFCCNYGHCPSTPATSSTAMPSSTPGTTWIL 4250
4251 TELTTTATTTASTGSTATPSSTPGTAPPPKVLTSPATTPTATSSKATSSS 4300
4301 SPRTATTLPVLTSTATKSTATSVTPIPSSTLGTTGTLPEQTTTPVATMST 4350
4351 IHPSSTPETTHTSTVLTTKATTTRATSSTSTPSSTPGTTWILTELTTAAT 4400
4401 TTAATGPTATPSSTPGTTWILTELTTTATTTASTGSTATPSSTPGTTWIL 4450
4451 TEPSTTATVTVPTGSTATASSTQATAGTPHVSTTATTPTVTSSKATPSSS 4500
4501 PGTATALPALRSTATTPTATSFTAIPSSSLGTTWTRLSQTTTPTATMSTA 4550
4551 TPSSTPETVHTSTVLTATATTTGATGSVATPSSTPGTAHTTKVPTTTTTG 4600
4601 FTATPSSSPGTALTPPVWISTTTTPTTTTPTTSGSTVTPSSIPGTTHTAR 4650
4651 VLTTTTTTVATGSMATPSSSTQTSGTPPSLTTTATTITATGSTTNPSSTP 4700
4701 GTTPITPVLTSTATTPAATSSKATSSSSPRTATTLPVLTSTATKSTATSF 4750
4751 TPIPSSTLWTTWTVPAQTTTPMSTMSTIHTSSTPETTHTSTVLTTTATMT 4800
4801 RATNSTATPSSTLGTTRILTELTTTATTTAATGSTATLSSTPGTTWILTE 4850
4851 PSTIATVMVPTGSTATASSTLGTAHTPKVVTTMATMPTATASTVPSSSTV 4900
4901 GTTRTPAVLPSSLPTFSVSTVSSSVLTTLRPTGFPSSHFSTPCFCRAFGQ 4950
4951 FFSPGEVIYNKTDRAGCHFYAVCNQHCDIDRFQGACPTSPPPVSSAPLSS 5000
5001 PSPAPGCDNAIPLRQVNETWTLENCTVARCVGDNRVVLLDPKPVANVTCV 5050
5051 NKHLPIKVSDPSQPCDFHYECECICSMWGGSHYSTFDGTSYTFRGNCTYV 5100
5101 LMREIHARFGNLSLYLDNHYCTASATAAAARCPRALSIHYKSMDIVLTVT 5150
5151 MVHGKEEGLILFDQIPVSSGFSKNGVLVSVLGTTTMRVDIPALGVSVTFN 5200
5201 GQVFQARLPYSLFHNNTEGQCGTCTNNQRDDCLQRDGTTAASCKDMAKTW 5250
5251 LVPDSRKDGCWAPTGTPPTASPAAPVSSTPTPTPCPPQPLCDLMLSQVFA 5300
5301 ECHNLVPPGPFFNACISDHCRGRLEVPCQSLEAYAELCRARGVCSDWRGA 5350
5351 TGGLCDLTCPPTKVYKPCGPIQPATCNSRNQSPQLEGMAEGCFCPEDQIL 5400
5401 FNAHMGICVQACPCVGPDGFPKFPGERWVSNCQSCVCDEGSVSVQCKPLP 5450
5451 CDAQGQPPPCNRPGFVTVTRPRAENPCCPETVCVCNTTTCPQSLPVCPPG 5500
5501 QESICTQEEGDCCPTFRCRPQLCSYNGTFYGVGATFPGALPCHMCTCLSG 5550
5551 DTQDPTVQCQEDACNNTTCPQGFEYKRVAGQCCGECVQTACLTPDGQPVQ 5600
5601 LNETWVNSHVDNCTVYLCEAEGGVHLLTPQPASCPDVSSCRGSLRKTGCC 5650
5651 YSCEEDSCQVRINTTILWHQGCETEVNITFCEGSCPGASKYSAEAQAMQH 5700
5701 QCTCCQERRVHEETVPLHCPNGSAILHTYTHVDECGCTPFCVPAPMAPPH 5750
5751 TRGFPAQEATAV 5762
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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