 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8WQ85 from www.uniprot.org...
The NucPred score for your sequence is 0.79 (see score help below)
1 MEYKSIEKSIVRESKVRNVFSKVCKKELFYTNLKVNSASEELLKSSKSLF 50
51 AYPSSIGGGSCLSITKLSNHGKVPDTPFCIKGHTDPISCFEFSNFNDYVI 100
101 ATGSRDCTIKIWEVPEEGLIKDNLVTPLITLPKQQKRVTGVYFHPSVDSL 150
151 FMSSTLDYTLDIWDLSSTGEQSSVIQKLTGHEDLIMSVGWNTWSGGDKLA 200
201 TSSRDKKMRLYDPRSQSTPIQTISTHEGAQGFKLCWADSNGLELICTVGA 250
251 NKSAQRQLYLWDPRQLQSSQPLVSKDVTTDSSILSPYYDFGTNMVYLGGK 300
301 GDGIYYYEIEKNNAHHIGKATFGNVTQSAITLLPKSVVDVNICEIDRFLR 350
351 LTAANSVEMVSFMCPRKSQLFQEDIFPPCPSGDPTTDCSLWFADKQLKVI 400
401 PHTISMKPDGVQSIYEVSEEEGGKSKEKDKLEQLSKLSIGNSGSGGGGGD 450
451 GDGNGGDSPFITEGIVKQEIEGWLFNSYENRYLKIVKDKIYCFLNEDSAQ 500
501 AIWDSPVLNIKYVDIYDEDENTSGEEWSLRFNIILLNGKEHRMECSTVKQ 550
551 RDAWCQSINAYREMKQQVDQSVVSPTMGEFHLVNTTPVAPSPMVISENKN 600
601 ALQKFSVPSPKEQQQQQQQGSESPNSTTPKSSTPTQTRHHSVLSRNPSYT 650
651 SLKSSGGFSKPSPSSSTSTPPSTFASPLSIAQTSSTTTTTTTTTTTTSSS 700
701 STPPPLRANNSTSSTPLNSSTGIKQSDIVIEGNLTELIPGLLWNSNTEKW 750
751 YVVSEGMLYSYKNKSLKQLDPLETIHLEKAISAHKTKEIFTIQGFSFQLS 800
801 TPNRIIHLLAKTKEERGSWLSVLRQNLKSSGETKPKSVLTRASTMDELIS 850
851 SPMSDDESNTNEGGVEEEEEEQPLEGQLSRKLPGIFSMWGQCFVALLAED 900
901 LFVSRNKLSTTPELRIQLSSISLIKKISPNEFTLYDSMNQVVCNFRTIAP 950
951 TAEFDDCTRWIDGLEAARKRSIDIIKMFGINEKEVLSPLPSSSSIPSSGS 1000
1001 NGNLLDPSADDLTRYLDLTAIKNGKQKILIQVKGKRKIRVRMVKLSTSSL 1050
1051 NCHNSFILDAGPRIFVWAGSKTSRVNKAKALDFANRIRTKERGGKSTLIQ 1100
1101 LDQGRDEQSFDFWEILGGNSSDPIATTPTPEEQDTESIKTTIYRVGLDVK 1150
1151 KNSLRARLAWEGTDWKLPNKEILNTKFVYVVDCVTEIFVWVGKESSSIQR 1200
1201 KMATKVALVLQAQKDRVDWTKITRLTEFGENNLFKEKFANYPGMLPISTT 1250
1251 RQEIKSHVATSKVEHKIETLASRMTTPFIDNEALFTIPIDEGGRVKVWKI 1300
1301 EDYEKIDHPQHLYSQFFSSDSYIVLYTYMQNNKEAHVIYYYLGRDSSINE 1350
1351 KGTSAYLTVDLNESLVGACVQTRVVANKECKNFLNLFKTKMVIHKGKYNN 1400
1401 YDPKKPSLYQVKGLDKIDIRAVQVEFSSSMLNTLHVSILRTPEKIYIWHG 1450
1451 KFSLDAEQNSALSIAENFNSTSAPIEILKEGSESNEFWSAFESTGGRQKY 1500
1501 FNDIMIQSSSIPTSFTYKPRFFVCSNASGIVEVTEESPFSQDDLDIGSVC 1550
1551 ILDVQSHIYLWIGSRATHRTKRASMEVVLNFIETSKLGHSKEHTKVLIAT 1600
1601 PFEEPIGFKSYFRAWCTSKYPKNKLPLVEKDGIPVEQVLKDYLKEIYTYE 1650
1651 ELLADPLPAGVDSTKLDTYLNDEDFEKVFKMTRTEWLKIPAWKREGIKKE 1700
1701 LFLF 1704
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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