 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q9QY40 from www.uniprot.org...
The NucPred score for your sequence is 0.44 (see score help below)
1 MLTDFLQAPVMAPWSPFSLHLLLLFLPLLPLTRVHRFSVPNTSFNHLVLA 50
51 PDQGKLYVGAVNHLFQLSPELKMESVAVTGPVIDSPDCVPFRDLAECPQA 100
101 QLTDNANQLLLVSSRTQELVACGQVKQGVCEKRRLGDVTQVLYQAEDPGD 150
151 GQFVAANTLGVTTVGLVVPLPGRDLLLVARGLAGKLSAGVPPLTVRQLAG 200
201 PQPFSSEGLGRLVVGDFSDYNNSYVGAFSDAHSAYFVFRRRGARAQTEYR 250
251 SYVARVCLRDVNLYSYVEMPLTCHGQGLIQAAFLTPDTLLGAFSAGTSQA 300
301 QAALCAFPLADLDRSMEQARRLCYTTGGQGPSGMEEATVEYGVTSRCVTL 350
351 PPDSPESYPCGDEHTPSPIAGRQPLEAQPLLQLGQSISAVAALQTDGHTI 400
401 AFLGDTQGQLHKVFLNSSHGQVYHSQQVGPPGSAISPDLLVDSNGDHLYV 450
451 LTAQQVDRILVAACPQFPNCTTCLQARDPLCGWCILQGRCTRRGECGRAA 500
501 QPNHWLWSYEDNHCPYIQSLLPAQHPRQEQGQIILSVPRLPTLAMDEYFH 550
551 CAFGGYNSLAQVEEPHVVCTTPPQDQMPPNPPGSDHVTLPLALMFEDVVL 600
601 TATTFSFYDCSAVQALEVAAPCRACVSSLWRCHWCPQSSHCIYGEHCPEG 650
651 EKAVYSAQEVDILVRGPEACPQVEGLASPQLVPVGWESHVTLHIQNLHYF 700
701 QGLPALYHCWLELPGKLQKLPASLEETSRDSGLIHCQAQQFYPSMSQWEL 750
751 PVPIYVTRGEIQRLDNAGDLHVTLYDCAMGHPDCSHCQAANGSLSCLWCG 800
801 DGQPACRYGPLCPPGAVEQLCPIPSIDVIEPLTGPPEGGLAITILGSNLG 850
851 QAFNDVRNAVTVAGQPCNPDPSLYRISARIVCVTSPAPNGTAGPVQVAIK 900
901 SRPPGISTQNFTYQDPVLLSLNPQWGPQAGGTQLTIHGQYLQTGGNISVF 950
951 VGDQPCPIQEPVCPEAIICHTMPQTEPGEAVVLIVFGHVERKLLTTPFRY 1000
1001 TANPQLVEAEPSVSFRGGGRVIRVRGTGLDVVWQPLLSVWLEDEPKVKAL 1050
1051 GVQAQDANPRRSCGAPAADPQACIHLESGLLQCSTLCSVNSSSLLLCHSP 1100
1101 AVPDGALPKRVFFALDNMQVDFASASGGQGFLYQPNPRLAPLSHEGITHP 1150
1151 YHLKPGHVLDVEGEGLNLGISKEEVQVHIGDGECLVKTLTLTHLYCEPPP 1200
1201 QAPQPTNGSGTLPQFVVQMGNLRLALGPVQYEAESMMSTFPVEAQLGLGM 1250
1251 GAAVLIAAVLLLTLMYRHKSKKALRDYQKVLVQLENLETGVGDQCRKEFT 1300
1301 DLMTEMTDLTSDLEASGIPFLDYRTYAERAFFPGHVGCPLQPGLEGLGEE 1350
1351 GRSVTVRQGLTQLSNLLNSKLFLLTLIHTLEEQPSFSQRDRCHVASLLSL 1400
1401 ALHSKLEYLTDIMRTLLGDLAAHYVHKNPKLMLRRTETMVEKLLTNWLSI 1450
1451 CLYTFLKEVAGEPLYMLFRAIKYQVDKGPVDAVTGKAKRTLNDSHLLRED 1500
1501 VEFQPLTLMALVGPEADRAAGNSGVHRVPARVLDTDTITQVKEKVLDQIY 1550
1551 KGTPFSQRPSVHSLDLEWRSGLAGHLTLSDEDLTSVTQNHWKRLNTLQHY 1600
1601 KVPDGATVVLIPQVHNGGTVSQSLGQTGCPSGENTPMLEDGEEGGVRLWH 1650
1651 LVKATEEAEGAKVRRSSLRDRERERSRAKAIPEIYLTRLLSMKGTLQKFV 1700
1701 DDTFQAILSMNRPVPIAVKYLFDFLDELAEKHGIEDPETLHIWKTNSLLL 1750
1751 RFWVNVLKNPQLIFDVQVSDNEDAILAVIAQTFIDSCMVSEHKVGRDSPV 1800
1801 NKLLYAREIPRYKQMVEKYYADIRQSSPASYQEMNSALAELSGNYSSAPH 1850
1851 CLEALRELYNHIHRYYDQIISALEEDPVAQKMQLACRLQQVAALVEYKVT 1900
1901 DL 1902
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.) |
Go back to the NucPred Home Page.