SBC logo Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden.

NucPred

Fetching Q5Z987 from www.uniprot.org...

The NucPred score for your sequence is 0.71 (see score help below)

   1  MANFSSHIQELRELIAASSTTTSTSAPASVHFEVKLREVLPNLLRDYVVP    50
  51  SSPTADGREATAVLKLLSYTAGKFPGVFFHGRAADVIRVIGRVLPFFAEP   100
 101  NFRSRHEIIFDTVWSLLSLLRTGDREAYRQFFLDVMVAVQDVLYVVASMH   150
 151  GDRPSGVLTERYLVKCLCGSFSDILDSPGIFSDLPDSCQPKNGPGVLVDL   200
 201  TGETRWRPFATMLIKLVNKCLADGTLYVEGLVNMPFVSAACSIICYGDES   250
 251  LHKVCFDFARIVATVITVEILPVENIIRSIMCILSQDVNGLSDIRDADYD   300
 301  FSMGACLHALHSSCPGYIVAITASDIVNVFQRAVHTSRSSELQVAMCNAY   350
 351  KRIVELCSPRVWKPEILLKLLCLPKPCAKLIECIRLVVDKSGQSFLSSDD   400
 401  RDDGSSLLAKSEGLDLPKVGQKRIALDEENSFPKRLKMTEPRFSSGSFMV   450
 451  DELSAGVGQELEKDHGCDFRVQLYSLINCLSPDNHMAYPLEPAISIQVLS   500
 501  LLCLSLSVYPKTNLFSRISKQVLSWIPWICKQTTKICMFSFDVSLYFEAV   550
 551  QTVMLLQSFLPGHTKLFEDEPLLIGNGCTDFEYPRYADLINLLKLVSDDG   600
 601  YLTSQTCSEKLKCLAVQIIAKIGSRQNAECDLQVLELAIQSETGELQNEA   650
 651  LMSLPIIVLYSGPRMLGAMFRKLETIGTLGCKKLWKSIAISLGFLSCLNG   700
 701  TTDCTDKVGNHCKLFLAKHCEQPILTLNLLRGFWCPQCDVRTVHIEDQVP   750
 751  IVDIALSEDKNIDFKINMFKAHSLFFKFLYAETSEECIVSIVEVLPRILK   800
 801  HSSRDVLLDMKFQWVQCVDFLLLHEMKAVRDAFSSVVSCFLETNAMDILF   850
 851  SDGTGMSGGTSRVKFMDKIKSAFTEAEDPQILLTLLESTAAIVKASDIHG   900
 901  EVFFCSFVLLIGQLGNHDYIVRVTALRLLQRCCTYCFKGGLELFLSKYFH   950
 951  VRDNLYDYLSSRLLTHPVVISEFAESVLGVKTEELIRRMVPSIIPKLIVS  1000
1001  HQNNDQAVVTLNELASHLNSELVPLIVNSLPKVLSFALFYEDGQHLSSVL  1050
1051  QFYHTETGTDSKEIFSAALPTLLDEIICFPGESDQIETDRRMAKISPTIQ  1100
1101  NIARILTGNDNLPEFLKNDFVRLLNSIDKKMLHSSDVNLQKQALQRIRKL  1150
1151  VEMMGPYLSTHAPKIMVLLIFAIDKETLQMDGLDVLHFFIKRLAEVSCTS  1200
1201  IKYVMSQVVAAFIPSLERCRERPLVHLGKIVEILEELVVKNIILLKQHIR  1250
1251  ELPLLPSLPSLSGVNKVIQEARGLMTLQDHLKDAVNGLNHESLNVRYMVA  1300
1301  CELNKLFNDRRGDITSLIIGEDIADLDIISSLIMSLLKGCAEESRTVVGQ  1350
1351  RLKLVCADCLGALGAVDPAKFKVMSCERFKIECSDDDLIFELIHKHLARA  1400
1401  FRAASDTTVQDSAALAIQELLKLSGCQSLPNESSSCKMSKRGQKLWGRFS  1450
1451  SYVKEIIAPCLTSRFHLPSVNDATLAGPIYRPTMSFRRWIYYWIRKLTSH  1500
1501  ATGSRSGIFGACRGIVRHDMPTAIYLLPYLVLNVVCYGTPEARQSITEEI  1550
1551  LSVLNAAASESSGAIVHGITGGQSEVCIQAVFTLLDNLGQWVDDLKQEIA  1600
1601  LSQSNYAMAGRQGGKLRDESNSMYDQDQLLVQCSNVAELLAAIPKVTLAK  1650
1651  ASFRCQAHARALMYFESHVREKSGSSNPAADCSGAFSDDDISFLMEIYGG  1700
1701  LDEPDGLLGLANLRKSSTLQDQLIINEKAGNWAEVLTLCEQSLQMEPDSV  1750
1751  HRHCDVLNCLLNMCHLQAMIAHVDGLVYRIPQSKKTWCMQGVQAAWRLGR  1800
1801  WDLMDEYLAEADKGLVCRSSENNASFDMGLAKIFNAMMKKDQFMVAEKIA  1850
1851  QSKQALLVPLAAAGMDSYMRAYPYIVKLHMLRELEDFNSLLGDESFLEKP  1900
1901  FAADDPKFLKLTKDWENRLRCTQPSLWAREPLLAFRRMVYNLSHMNAQAG  1950
1951  NCWLQYARLCRLAGHYETAHRAILEADASGAPNAHMEKAKYLWNIRKSDS  2000
2001  AIAELQQTLLNMPADVLGPTVLSSLSSLSLALPNAPLSVTQASKENPDVS  2050
2051  KTLLLYTRWIHYTGQKQSNDIKSLYSRVADLRPKWEKGFFCIAKFYDDLL  2100
2101  VDARRRQEDKKIASGVGPVPPSSTGSLTTATEEKPWWDMLPVVLIQYARG  2150
2151  LHRGHKNLFQALPRLLTLWFEFGSIYIQDGSSFNKPMKEVHIRLLGIMRG  2200
2201  CLKDLPPYQWLTVLSQLISRICHQNIEVVKLVKCIVTSILREYPQQALWM  2250
2251  MAAVSKSTVAARRDAAAEILQSAKKGSRRGSDSNALFMQFPSLIDHLIKL  2300
2301  CFHPGQPKARAINISTEFSSLKRMMPLGIILPIQQALTVTLPSYDTNMTD  2350
2351  QSTFRPFSVSEHPTIAGIADDAEILNSLQKPKKVVFIGSDGISRPFLCKP  2400
2401  KDDLRKDSRMMEFNAMINRLLSKVPESRRRKLYIRTFAVVPLTEDCGMVE  2450
2451  WVPNTRGLRQILQDIYITCGKFDRMKTNPQIKKIYDQLQGKMPEEMLKAK  2500
2501  ILPMFPPVFHKWFLTTFSEPAAWIRARAAYAHTTAVWSMVGHIVGLGDRH  2550
2551  GENILLDSTTGDCIHVDFSCLFDKGLLLEKPEVVPFRFTQNMVDGLGITG  2600
2601  YEGVFVKVCEITLSVLRTHKEALMTVLETFIHDPLVEWTKSHKSSGVEVR  2650
2651  NPHAQRAISNITERLQGVVVGVNAAPSLPLSVEGQARRLIAEAVSHSNLG  2700
2701  KMYVWWMAWF                                          2710

Positively and negatively influencing subsequences are coloured according to the following scale:

(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)

with NucPred



If you find NucPred useful, please cite this paper:
NucPred - Predicting Nuclear Localization of Proteins. Brameier M, Krings A, Maccallum RM. Bioinformatics, 2007. PubMed id: 17332022
The authors also look forward to your comments and suggestions.

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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