 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P30427 from www.uniprot.org...
The NucPred score for your sequence is 0.86 (see score help below)
1 MVAGMLMPLDQLRAIYEVLFREGVMVAKKDRRPRSLHPHVPGVTNLQVMR 50
51 AMTSLKARGLVRETFAWCHFYWYLTNEGIDHLRQYLHLPPEIVPASLQRV 100
101 RRPVAMVMPARRRSPHVQTMQGPLGCPPKRGPLPAEDPAREERQVYRRKE 150
151 REEGAPETPVVSATIVGTLARPGPEPTPATDERDRVQKKTSTKWVNKHLI 200
201 KAQRHISDLYEDLRDGHNLISLLEVLSGDSLPREKGRMRFHKLQNVQIAL 250
251 DYLRHRQVKLVNIRNDDIADGNPKLTLGLIWTIILHFKISDIQVSGQSED 300
301 MTAKEKLLLWSQRMVEGYQGLRCDNFTTSWRDGRLFNAIIHRHKPMLIDM 350
351 NKVYRQTNLENLDQAFSVAERDLGVTRLLDPEDVDVPQPDEKSIITYVSS 400
401 LYDAMPRVPGAQDGVRANELQLRWQEYRELVLLLLQWIRHHTAAFEERKF 450
451 PSSFEEIEILWCQFLKFKETELPAKEADKNRSKGIYQSLEGAVQAGQLKI 500
501 PPGYHPLDVEKEWGKLHVAILEREKQLRSEFERLECLQRIVSKLQMEAGL 550
551 CEEQLYQADSLLQSDIRLLASGKAAQRAGEVERDLDKADGMIRLLFNDVQ 600
601 TLKDGRHPQGEQMYRRVYRLHERLVAIRTEYNLRLKAGVGAPVTQVTLQS 650
651 TQRRPELEDSTLRYLHDLLAWVEENQRRIDGAEWGVDLPSVEAQLGSHRG 700
701 MHQSIEEFRAKIERARNDESQLSPATRGAYRDCLGRLDLQYAKLLNSSKA 750
751 RLRSLESLHGFVAAATKELMWLNEKEEEEVGFDWSDRNTNMAAKKESYSA 800
801 LMRELEMKEKKIKEIQNTGDRLLREDHPARPTVESFQAALQTQWSWMLQL 850
851 CCCIEAHLKENTAYFQFFSDVREAEEQLQKLQETLRRKYSCDRSITVTRL 900
901 EDLLQDAQDEKEQLNEYKGHLSGLAKRAKAIVQLKPRNPAHPVRGHVPLL 950
951 AVCDYKQVEVTVHKGDQCQLVGPAQPFHWKVLSSSGSEAAVPSVCFLVPP 1000
1001 PNQEAQEAVARLEAQHQALVTLWHQLHVDMKSLLAWQSLNRDIQLIRSWS 1050
1051 LVTFRTLKPEEQRQALRNLELHYQAFLRDSQDAGGFGPEDRLVAEREYGS 1100
1101 CSRHYQQLLQSLEQGEQEESRCQRCISELKDIRLQLEACETRTVHRLRLP 1150
1151 LDKDPARECAQRIAEQQKAQAEVEGLGKGVARLSAEAEKVLALPEPSPAA 1200
1201 PTLRSELELTLGKLEQVRSLSAIYLEKLKTISLVIRSTQGAEEVLKTHEE 1250
1251 HLKEAQAVPATLQELEVTKASLKKLRAQAEAQQPVFNTLRDELRGAQEVG 1300
1301 ERLQQRHGERDVEVERWRERVTQLLERWQAVLAQTDVRQRELEQLGRQLR 1350
1351 YYRESADPLSSWLQDAKSRQEQIQAVPIANSQAAREQLRQEKALLEEIER 1400
1401 HGEKVEECQKFAKQYINAIKDYELQLITYKAQLEPVASPAKKPKVQSGSE 1450
1451 SVIQEYVDLRTRYSELTTLTSQYIKFISETLRRMEEEERLAEQQRAEERE 1500
1501 RLAEVEAALEKQRQLAEAHAQAKAQAELEARELQRRMQEEVTRREEAAVD 1550
1551 AQQQKRSIQEELQHLRQSSEAEIQAKAQQVEAAERSRMRIEEEIRVVRLQ 1600
1601 LETTERQRGGAEDELQALRARAEEAEAQKRQAQEEAERLRRQVQDESQRK 1650
1651 RQAEAELALRVKAEAEAAREKQRALQALDELKLQAEEAERWLCQAEAERA 1700
1701 RQVQVALETAQRSAEVELQSKRPSFAEKTAQLERTLQEEHVTVTQLREEA 1750
1751 ERRAQQQAEAERAREEAERELERWQLKANEALRLRLQAEEVAQQKSLAQA 1800
1801 DAEKQKEEAEREARRRGKAEEQAVRQRELAEQELEKQRQLTEGTAQQRLA 1850
1851 AEQELIRLRAETEQGEHQRQLLEEELARLQHEATAATQKRQELEAELAKV 1900
1901 RAEMEVLLASKARAEEESRSTSEKSKQRLEAEAGRFRELAEEAARLRALA 1950
1951 EEARRHRELAEEDAARQRAEADGVLTEKLAAISEATRLKTEAEIALKEKE 2000
2001 AENERLRRLAEDEAFQRRRLEEQAAQHKADIEERLAQLRKASESELERQK 2050
2051 GLVEDTLRQRRQVEEEIMALKASFEKAAAGKAELELELGRIRSNAEDTMR 2100
2101 SKELAEQEAARQRQLAAEEEQRRREAEERVQRSLAAEEEAARQRKVALEE 2150
2151 VERLKAKVEEARRLRERAEQESARQLQLAQEAAQKRLQAEEKAHAFVVQQ 2200
2201 REEELQQTLQQEQNMLERLRSEAEAARRAAEEAEEAREQAEREAAQSRKQ 2250
2251 VEEAERLKQSAEEQAQAQAQAQAAAEKLRKEAEQEAARRAQAEQAALKQK 2300
2301 QAADAEMEKHKKFAEQTLRQKAQVEQELTTLRLQLEETDHQKSILDEELQ 2350
2351 RLKAEVTEAARQRSQVEEELFSVRVQMEELGKLKARIEAENRALILRDKD 2400
2401 NTQRFLEEEAEKMKQVAEEAARLSVAAQEAARLRQLAEEDLAQQRALAEK 2450
2451 MLKEKMQAVQEATRLKAEAELLQQQKELAQEQARRLQADKEQMAQQLVEE 2500
2501 TQGFQRTLEAERQRQLEMSAEAERLKLRMAEMSRAQARAEEDAQRFRKQA 2550
2551 EEIGEKLHRTELATQEKVTLVQTLEIQRQQSDQDAERLREAIAELEREKE 2600
2601 KLKQEAKLLQLKSEEMQTVQQEQILQETQALQKSFLSEKDSLLQRERFIE 2650
2651 QEKAKLEQLFQDEVAKAKQLQEEQQRQQQQMEQEKQELVASMEEARRRQR 2700
2701 EAEEGVRRKQEELQRLEQQRQQQEKLLAEENQRLRERLQRLEEEHRAALA 2750
2751 HSEEIATSQAAATKALPNGRDALDGPSMEAEPEYTFEGLRQKVPAQQLQE 2800
2801 AGILSMEELQRLTQGHTTVAELTQREDVRHYLKGGSSIAGLLLKPTNEKL 2850
2851 SVYTALQRQLLSPGTALILLEAQAASGFLLDPVRNRRLTVNEAVKEGVVG 2900
2901 PELHHKLLSAERAVTGYKDPYTGEQISLFQAMKKDLIVRDHGIRLLEAQI 2950
2951 ATGGIIDPVHSHRVPVDVAYQRGYFDEEMNRVLADPSDDTKGFFDPNTHE 3000
3001 NLTYLQLLERCVEDPETGLRLLPLTDKAAKGGELVYTDTEARDVFEKATV 3050
3051 SAPFGKFQGKTVTIWEIINSEYFTAEQRRDLLRQFRTGRITVEKIIKIVI 3100
3101 TVVEEHERKGQLCFEGLRALVPAAELLDSGVISHEVYQQLQRGERSVREV 3150
3151 AEADEVRQALRGTSVIAGVWLEEAGQKLSIYEALRRDLLQPEVAVALLEA 3200
3201 QAGTGHIIDPATSARLTVDEAVRAGLVGPEMHEKLLSAEKAVTGYRDPYS 3250
3251 GQSVSLFQALKKGLIPREQGLRLLDAQLSTGGIVDPSKSHRVPLDVAYAR 3300
3301 GYLDKETNRALTSPRDDARVYLDPSTREPVTYSQLQQRCRSDQLTGLSLL 3350
3351 PLSEKAVRARQEEVYSELQARETLEKAKVEVPVGGFKGRALTVWELISSE 3400
3401 YFTEEQRQELLRQFRTGKVTVEKVIKILITIVEEVETQRQERLSFSGLRA 3450
3451 PVPASELLASKILSRTQFEQLKDGKTSVKDLSEVGSVRTLLQGSGCLAGI 3500
3501 YLEDSKEKVTIYEAMRRGLLRASTATLLLEAQAATGFLVDPVRNQRLYVH 3550
3551 EAVKAGVVGPELHEKLLSAEKAVTGYKDPYSGSTISLFQAMKKGLVLRDH 3600
3601 AIRLLEAQIATGGIIDPVHSHRLPVDVAYQRGYFDEEMNRVLADPSDDTK 3650
3651 GFFDPNTHENLTYLQLLERCVEDPETGLRLLPLRGAEKTEVVETTQVYTE 3700
3701 EETRRAFEETQIDIPGGGSHGGSSMSLWEVMQSDMIPEDQRARLMADFQA 3750
3751 GRVTKERMIIIIIEIIEKTEIIRQQNLASYDYVRRRLTAEDLYEARIISL 3800
3801 ETYNLFREGTKSLREVLEMESAWRYLYGTGSVAGVYLPGSRQTLTIYQAL 3850
3851 KKGLLSAEVARLLLEAQAATGFLLDPVKGERLTVDEAVRKGLVGPELHDR 3900
3901 LLSAERAVTGYRDPYTEQPISLFQAMKKELIPAEEALRLLDAQLATGGIV 3950
3951 DPRLGFHLPLEVAYQRGYLNKDTHDQLSEPSEVRSYVDPSTDERLSYTQL 4000
4001 LKRCRRDDNSGQMLLPLSDARKLTFRGLRKQITVEELVRSQVMDEATALQ 4050
4051 LQEGLTSIEEVTKNLQKFLEGTSCIAGVFVDATKERLSVYQAMKKGIIRP 4100
4101 GTAFELLEAQAATGYVIDPIKGLKLTVEEAVRMGIVGPEFKDKLLSAERA 4150
4151 VTGYKDPYSGKLISLFQAMKKGLILKDHGIRLLEAQIATGGIIDPEESHR 4200
4201 LPVEVAYKRGLFDEEMNEILTDPSDDTKGFFDPNTEENLTYLQLMERCIT 4250
4251 DPQTGLCLLPLKEKKRERKTSSKSSVRKRRVVIVDPETGKEMSVYEAYRK 4300
4301 GLIDHQTYLELSEQECEWEEITISSSDGVVKSMIIDRRSGRQYDIGDAIT 4350
4351 KNLIDRSALDQYRAGTLSITEFADMLSGNAGGFRSRSSSVGSSSSYPISS 4400
4401 AVPRTQLASWSDPTEETGPVAGILDTETLEKVSITEAMHRNLVDNITGQR 4450
4451 LLEAQACTGGIIDPSTGERFPVTEAVNKGLVDKIMVDRINLAQKAFCGFE 4500
4501 DPRTKTKMSAAQALKKGWLYYEAGQRFLEVQYLTGGLIEPDTPGRVSLDE 4550
4551 ALQRGTVDARTAQKLRDVSAYSKYLTCPKTKLKISYKDALDRSMVEEGTG 4600
4601 LRLLEAAAQSSKGYYSPYSVSGSGSTAGSRTGSRTGSRAGSRRGSFDATG 4650
4651 SGFSMTFSSSSYSSSGYGRRYASGPSASLGGPESAVA 4687
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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