NucPred on Proteomes

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

NucPred - predictions for eukaryotic proteomes

Species:

Note: All filters/tests are combined with AND unless otherwise stated

Show only the proteins with links to database(s):
OMIM - human disease genes
PDB - protein 3D structure
( AND OR combination )

Annotation filters (can be slow! - Perl regexps allowed: e.g. nucleus|nucleolus)

UniProt ID (e.g. "PK3B_")
UniProt description (e.g. "kinase")
UniProt subcellular location
AND
UniProt GO component
AND
AND the
AND the

Only show proteins where the PredictNLS prediction is:

positive
negative

Only show proteins where the PSORT II predicted location

is is not

Click here: to filter by NucPred score

exclude all transmembrane proteins predicted by TMHMM
don't exclude lone N-terminal predicted transmembrane helices
(these could be signal peptides)

export all ACs and IDs as text file

Show proteins (ordered by NucPred score ) from to (currently 98716 matches)

You can bookmark/save your search criteria with this link. You can also start again with default settings.

UniProt accession	UniProt ID	UniProt description	NucPred score	Predict- NLS	PSORT II	TMHMM #helices	UniProt annotation for subcellular location	Uniprot GO cellular component	OMIM	PDB	sequence length
P02601 UniProt NPD GO	MLE3_RAT	Myosin light chain 3, skeletal muscle isoform (A2 catalytic) (Alkali myosin light chain 3) (MLC3F)	0.00	-	cyt	0					149
Q24399 UniProt NPD GO	MLC1_DROMA	Myosin light chain alkali (Fragment)	0.00	-	cyt	0		muscle myosin [ISS]			82
Q24656 UniProt NPD GO	MLC1_DROSE	Myosin light chain alkali (Fragment)	0.00	-	cyt	0		muscle myosin [ISS]			82
Q24695 UniProt NPD GO	MLC1_DROTE	Myosin light chain alkali (Fragment)	0.00	-	mit	0		muscle myosin [ISS]			82
Q24766 UniProt NPD GO	MLC1_DROYA	Myosin light chain alkali (Fragment)	0.00	-	mit	0		muscle myosin [ISS]			82
P09540 UniProt NPD GO	MLEX_CHICK	Myosin light chain, embryonic (L23)	0.00	-	cyt	0					185
Q5R844 UniProt NPD GO	MYL6_PONPY	Myosin light polypeptide 6	0.00	-	cyt	0					150
P60661 UniProt NPD GO	MYL6_BOVIN	Myosin light polypeptide 6 (Myosin light chain alkali 3) (Myosin light chain 3) (MLC-3) (LC17)	0.00	-	cyt	0					150
P02607 UniProt NPD GO	MYL6_CHICK	Myosin light polypeptide 6 (Myosin light chain alkali smooth-muscle/non-muscle isoforms) (G2 catalyt ...	0.00	-	cyt	0		unconventional myosin [ISS]		1I84	150
P60660 UniProt NPD GO	MYL6_HUMAN	Myosin light polypeptide 6 (Smooth muscle and nonmuscle myosin light chain alkali 6) (Myosin light c ...	0.00	-	cyt	0		unconventional myosin [IEP]	609931		150
Q60605 UniProt NPD GO	MYL6_MOUSE	Myosin light polypeptide 6 (Smooth muscle and nonmuscle myosin light chain alkali 6) (Myosin light c ...	0.00	-	cyt	0		unconventional myosin [IEP]			150
P60662 UniProt NPD GO	MYL6_PIG	Myosin light polypeptide 6 (Smooth muscle and nonmuscle myosin light chain alkali 6) (Myosin light c ...	0.00	-	cyt	0					150
Q64119 UniProt NPD GO	MYL6_RAT	Myosin light polypeptide 6 (Smooth muscle and nonmuscle myosin light chain alkali 6) (Myosin light c ...	0.00	-	cyt	0		unconventional myosin [IEP]			150
P81077 UniProt NPD GO	MIP_BOTAS	Myotoxin inhibitor protein MIP	0.00	-	cyt	0	Secreted protein				63
Q3T0F7 UniProt NPD GO	MTPN_BOVIN	Myotrophin	0.00	-	cyt	0	Cytoplasm (By similarity)				117
Q863Z4 UniProt NPD GO	MTPN_CANFA	Myotrophin	0.00	-	cyt	0	Cytoplasm (By similarity)				117
P58546 UniProt NPD GO	MTPN_HUMAN	Myotrophin (Protein V-1)	0.00	-	cyt	0	Cytoplasm (By similarity)		606484		117
Q91955 UniProt NPD GO	MTPN_CHICK	Myotrophin (Protein V-1) (Granule cell differentiation protein)	0.00	-	cyt	0	Cytoplasm				118
P62774 UniProt NPD GO	MTPN_MOUSE	Myotrophin (Protein V-1) (Granule cell differentiation protein)	0.00	-	cyt	0	Cytoplasm				117
P62775 UniProt NPD GO	MTPN_RAT	Myotrophin (Protein V-1) (Granule cell differentiation protein)	0.00	-	cyt	0	Cytoplasm			2MYO	117
O80948 UniProt NPD GO	MB23_ARATH	Myrosinase-binding protein-like At2g39330	0.00	-	cyt	0					459
P20933 UniProt NPD GO	ASPG_HUMAN	N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase precursor (EC 3.5.1.26) (Glycosylasparaginase) (Aspa ...	0.00	-	exc	0	Lysosome	lysosome [NAS]	208400	1APZ	346
P61599 UniProt NPD GO	NAT5_HUMAN	N-acetyltransferase 5 (EC 2.3.1.-)	0.00	-	cyt	0					178
P61600 UniProt NPD GO	NAT5_MOUSE	N-acetyltransferase 5 (EC 2.3.1.-)	0.00	-	cyt	0					178
P39979 UniProt NPD GO	HPA3_YEAST	N-acetyltransferase HPA3 (EC 2.3.1.-)	0.00	-	cyt	0	Cytoplasm. Nucleus	cytoplasm [IDA] nucleus [IDA]			179
P79081 UniProt NPD GO	ATS1_SCHPO	N-acetyltransferase ats1 (EC 2.3.1.-)	0.00	-	cyt	0					168
Q9P430 UniProt NPD GO	XYL1_CANSH	NAD(P)H-dependent D-xylose reductase (EC 1.1.1.-) (XR)	0.00	-	cyt	0					323
Q85FL5 UniProt NPD GO	NU3C_ADICA	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P56751 UniProt NPD GO	NU3C_ARATH	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q9BBT8 UniProt NPD GO	NU3C_LOTJA	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P52765 UniProt NPD GO	NU3C_LUPLU	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P19044 UniProt NPD GO	NU3C_MAIZE	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q9MUQ9 UniProt NPD GO	NU3C_MESVI	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q9MTP5 UniProt NPD GO	NU3C_OENHO	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q6ENG9 UniProt NPD GO	NU3C_ORYNI	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P12126 UniProt NPD GO	NU3C_ORYSA	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q6L394 UniProt NPD GO	NU3C_SACHY	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q6ENV8 UniProt NPD GO	NU3C_SACOF	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
Q9M3L9 UniProt NPD GO	NU3C_SPIOL	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P06258 UniProt NPD GO	NU3C_TOBAC	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P26303 UniProt NPD GO	NU3C_WHEAT	NAD(P)H-quinone oxidoreductase chain 3, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 3) (N ...	0.00	-	end	3 *	Plastid; chloroplast				120
P26289 UniProt NPD GO	NU4LC_ARATH	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.00	-	end	3 *	Plastid; chloroplast				101
Q9MUL4 UniProt NPD GO	NU4LC_MESVI	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.00	-	end	3 *	Plastid; chloroplast				101
Q9TKV2 UniProt NPD GO	NU4LC_NEPOL	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.00	-	end	3 *	Plastid; chloroplast				101
Q8WHX7 UniProt NPD GO	NU4LC_PSINU	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.00	-	end	2 *	Plastid; chloroplast				106
Q85CT7 UniProt NPD GO	NU6C_ANTFO	NAD(P)H-quinone oxidoreductase chain 6, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 6) (N ...	0.00	-	end	5 *	Plastid; chloroplast				200
Q95695 UniProt NPD GO	NU6C_ARATH	NAD(P)H-quinone oxidoreductase chain 6, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 6) (N ...	0.00	-	end	5 *	Plastid; chloroplast				176
P06266 UniProt NPD GO	NU6C_MARPO	NAD(P)H-quinone oxidoreductase chain 6, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 6) (N ...	0.00	-	end	5 *	Plastid; chloroplast				191
Q9TKV3 UniProt NPD GO	NU6C_NEPOL	NAD(P)H-quinone oxidoreductase chain 6, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 6) (N ...	0.00	-	end	5 *	Plastid; chloroplast				169
Q9MTH9 UniProt NPD GO	NU6C_OENHO	NAD(P)H-quinone oxidoreductase chain 6, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 6) (N ...	0.00	-	end	5 *	Plastid; chloroplast				176

You are viewing entries 95751 to 95800 of 98716. You can see more proteins by changing the limits in the form at the top of this page, or click here for the next page of proteins .

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.)

Go back to the NucPred Home Page.