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

NucPred

Fetching O73700 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MQHHQQQQPEQHPEEANYASSTRIPLPGDGPTTQSNSSAPSKQTVLSWQA    50
  51  AIDAARQAKAAQNMNTTTAQPVGSLSQRKRQQYAKSKKQGNTSNSRPPRA   100
 101  LFCLSLNNPIRRACISLVEWKPFDIFILLSIFANCVALAVYIPFPEDDSN   150
 151  STNHNLEKVEYAFLIIFTVETFLKIIAYGLLLHPNAYVRNGWNLLDFVIV   200
 201  VVGLFSVILEQLTKETEGGSHSGGKPGGFDVKALRAFRVLRPLRLVSGVP   250
 251  SLQVVLNSIIKAMVPLLHIALLVLFVIIIYAIIGLELFIGKMHKSCFLID   300
 301  SDILVEEDPAPCAFSGNGRQCVMNGTECKGGWVGPNGGITNFDNFAFAML   350
 351  TVFQCITMEGWTDVLYWVNDAIGCEWPWIYFVSLIILGSFFVLNLVLGVL   400
 401  SGEFSKEREKAKARGDFQKLREKQQLEEDLKGYLDWITQAEDIDPENDEE   450
 451  ADEEGKRNRVTLADLMEEKKKSRLSCFGRSSNKHASMPTSETESVNTENV   500
 501  SGEGENPACCGSLCQTISKSKFSRRWRRWNRFNRRKCRAAVKSVTFYWLV   550
 551  IVLVFLNTLTISSEHYNQPDWLTQIQDIANKVLLALFTCEMLVKMYSLGL   600
 601  QAYFVSLFNRFDCFVVCGGIVETILVELEIMSPLGISVFRCVRLLRIFKV   650
 651  TRHWASLSNLVASLLNSMKSIASLLLLLFLFIIIFSLLGMQLFGGKFNFD   700
 701  ETQTKRSTFDNFPQALLTVFQILTGEDWNAVMYDGIMAYGGPSSSGMIVC   750
 751  IYFIILFICGNYILLNVFLAIAVDNLADAESLNTAQKEEAEEKERKKNAR   800
 801  KESLENKKSEKSEGDQKKPKDSKVTIAEYGEGEDEDKDPYPPCDVPVGED   850
 851  EEDEEDEPEVPAGPRPRRISELNMKEKITPIPEGSAFFIFSSTNPIRVGC   900
 901  HRLINHHIFTNLILVFIMLSSVSLAAEDPIRSHSFRNNILGYADYVFTSM   950
 951  FTFEIILKMTAFGAFLHKGSFCRNYFNLLDLLVVGVSLVSFGIQSSAISV  1000
1001  VKILRVLRVLRPLRAINRAKGLKHVVQCVFVAIRTIGNIMIVTTLLQFMF  1050
1051  ACIGVQLFKGKFYKCTDEAKQNPEECRGIYIVYKDGDVDNPMVKERVWQN  1100
1101  SDFNFDNVLSAMMALFTVSTFEGWPALLYKAIDSNGENVGPVYNYRVEIS  1150
1151  IFFIIYIIIIAFFMMNIFVGFVIVTFQEQGEQEYKNCELDKNQRQCVEYA  1200
1201  LKARPLRRYIPKNPYQYKFWYVVNSTGFEYIMFVLIMLNTLCLAMQHYGQ  1250
1251  SKLFNDAMDIMNMVFTGVFTVEMVLKLIAFKPKIFVRKKERWLGYFSDAW  1300
1301  NTFDSLIVIGSIVDVVLSEADPKPTETVTTDESGNSEDSARISITFFRLF  1350
1351  RVMRLVKLLSRGEGIRTLLWTFIKSFQALPYVALLIAMLFFIYAVIGMQV  1400
1401  FGKVAMRDNNQINRNNNFQTFPQAVLLLFRCATGEAWQEIMLACLPGKRC  1450
1451  DPESDYNPGEEYTCGSNFAIIYFISFYMLCAFLIINLFVAVIMDNFDYLT  1500
1501  RDWSILGPHHLDEFKRIWSEYDPEAKGRIKHLDVVTLLRRIQPPLGFGKL  1550
1551  CPHRVACKRLVAMNMPLNSDGTVMFNATLFALVRTALKIKTEGNLEQANE  1600
1601  ELRAVIKKIWKKTSMKLLDQVVPPAGDDEVTVGKFYATFLIQDYFRKFKK  1650
1651  RKEQGLVGKYPAKNTTIALQAGLRTLHDIGPEIRRAISCDLQDDEPEENN  1700
1701  PDEEEEVYKRNGALFGNHINHISSDRRDSFQQINTTHRPLHVQRPSIPSA  1750
1751  SDTEKNIYPHTGNSVYHNHHNHNSVGKQVPNSTNANLNNANVSKVVHGKH  1800
1801  ANFGSHEHRSENGYHSYSRADHEKRRRPSSRRTRYYETYIRSDSGDGRRP  1850
1851  TICREERDIRDYCNDDHYLGEQEYYSGEEYYEEDSMLSGNRHVYDYHCRH  1900
1901  HCHDSDFERPKGYHHPHGFFEEDDSQTCYDTKRSPRRRLLPPTPASNRRS  1950
1951  SFNFECLRRQSSQDDIPLSPNFHHRTALPLHLMQQQVMAVAGLDSSKAHK  2000
2001  HSPSRSTRSWATPPATPPNRDHTPYYTPLIQVDRAESTEHMNGSLPSLHR  2050
2051  SSWYTDDPDISYRTFTPANLTVPNDFRHKHSDKQRSADSLVEAVLISEGL  2100
2101  GRYAKDPKFVSATKHEIADACDMTIDEMESAASNLLNGNISNGTNGDMFP  2150
2151  ILSRQDYELQDFGPGYSDEEPEPGRYEEDLADEMICITSL            2190

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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