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
Q7LZM1 UniProt NPD GO	MYG_URILO	Myoglobin	0.03	-	cyt	0					153
P80473 UniProt NPD GO	MYOM1_BOVIN	Myomesin-1 (190 kDa titin-associated protein) (Fragments)	0.03	-	cyt	0					340
P05945 UniProt NPD GO	MLE_TODPA	Myosin catalytic light chain LC-1, mantle muscle	0.03	-	cyt	0					160
P02604 UniProt NPD GO	MLE1_CHICK	Myosin light chain 1, skeletal muscle isoform (A1 catalytic) (Alkali myosin light chain 1) (MLC-1) ( ...	0.03	-	cyt	0				2MYS	191
P05976 UniProt NPD GO	MLE1_HUMAN	Myosin light chain 1, skeletal muscle isoform (MLC1F) (A1 catalytic) (Alkali myosin light chain 1)	0.03	-	cyt	0		muscle myosin [NAS]	160780		193
P02602 UniProt NPD GO	MLE1_RABIT	Myosin light chain 1, skeletal muscle isoform (MLC1F) (A1 catalytic) (Alkali myosin light chain 1)	0.03	-	cyt	0					191
P05963 UniProt NPD GO	MLR_CHLNI	Myosin regulatory light chain, striated adductor muscle	0.03	-	nuc	0					156
O35790 UniProt NPD GO	PIGL_RAT	N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase (EC 3.5.1.89) (Phosphatidylinositol-glycan ...	0.03	-	nuc	0	Endoplasmic reticulum; endoplasmic reticulum membrane; single-pass membrane protein (By similarity)	extrinsic to endoplasmic reticulum membrane [TAS]			252
Q06430 UniProt NPD GO	GCNT2_HUMAN	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyl-transferase (EC 2.4.1.150) (N-acetylglucosaminyl ...	0.03	-	mit	1 *	Golgi apparatus; Golgi membrane; single-pass type II membrane protein	membrane fraction [TAS]	600429		400
P97402 UniProt NPD GO	GCNT2_MOUSE	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyl-transferase (EC 2.4.1.150) (N-acetylglucosaminyl ...	0.03	-	mit	1 *	Golgi apparatus; Golgi membrane; single-pass type II membrane protein				400
P23059 UniProt NPD GO	MAK31_YEAST	N-terminal acetyltransferase C complex subunit MAK31 (NatC compolex subunit MAK31) (L-A virus GAG pr ...	0.03	-	cyt	0		NatC complex [IDA]			88
O13283 UniProt NPD GO	XYL1_CANTR	NAD(P)H-dependent D-xylose reductase I,II (EC 1.1.1.-) (XR)	0.03	-	cyt	0					324
Q85AQ3 UniProt NPD GO	NU4LC_ANTFO	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.03	-	end	2 *	Plastid; chloroplast				93
P06260 UniProt NPD GO	NU4LC_MARPO	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.03	-	end	3 *	Plastid; chloroplast				100
Q9M3I9 UniProt NPD GO	NU4LC_SPIOL	NAD(P)H-quinone oxidoreductase chain 4L, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4L) ...	0.03	-	end	3 *	Plastid; chloroplast				101
Q9BBP1 UniProt NPD GO	NU6C_LOTJA	NAD(P)H-quinone oxidoreductase chain 6, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 6) (N ...	0.03	-	end	5 *	Plastid; chloroplast				176
P27758 UniProt NPD GO	NUCC_SECCE	NAD(P)H-quinone oxidoreductase chain H, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain H) (N ...	0.03	-	cyt	0	Plastid; chloroplast				90
Q9M3M1 UniProt NPD GO	NUGC_SPIOL	NAD(P)H-quinone oxidoreductase chain J, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain J) (N ...	0.03	-	cyt	0	Plastid; chloroplast				158
Q3V4X9 UniProt NPD GO	NU1C_ACOCL	NAD(P)H-quinone oxidoreductase subunit 1, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase subunit 1) ...	0.03	-	end	5 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				365
P92432 UniProt NPD GO	NU1C_HORVU	NAD(P)H-quinone oxidoreductase subunit 1, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase subunit 1) ...	0.03	-	end	6 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				362
Q9BBN9 UniProt NPD GO	NU1C_LOTJA	NAD(P)H-quinone oxidoreductase subunit 1, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase subunit 1) ...	0.03	-	end	6 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				363
Q9TKV5 UniProt NPD GO	NU1C_NEPOL	NAD(P)H-quinone oxidoreductase subunit 1, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase subunit 1) ...	0.03	-	end	5 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				362
Q9M3I6 UniProt NPD GO	NU1C_SPIOL	NAD(P)H-quinone oxidoreductase subunit 1, chloroplast (EC 1.6.5.-) (NAD(P)H dehydrogenase subunit 1) ...	0.03	-	end	6 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				365
Q5R683 UniProt NPD GO	NDUB1_PONPY	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (EC 1.6.5.3) (EC 1.6.99.3) (NADH-ubiquin ...	0.03	-	cyt	0	Mitochondrion; mitochondrial inner membrane; matrix side (By similarity)				58
Q9NX14 UniProt NPD GO	NDUBB_HUMAN	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial precursor (EC 1.6.5.3) ( ...	0.03	-	nuc	1	Mitochondrion; mitochondrial inner membrane (Potential)		300403		153
Q4R4E0 UniProt NPD GO	NDUB5_MACFA	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial precursor (EC 1.6.5.3) (E ...	0.03	-	mit	1	Mitochondrion; mitochondrial inner membrane; matrix side (By similarity)				189
P04394 UniProt NPD GO	NUHM_BOVIN	NADH-ubiquinone oxidoreductase 24 kDa subunit, mitochondrial precursor (EC 1.6.5.3) (EC 1.6.99.3) (P ...	0.03	-	mit	0	Mitochondrion; mitochondrial inner membrane				249
Q37384 UniProt NPD GO	NUCM_ACACA	NADH-ubiquinone oxidoreductase 49 kDa subunit (EC 1.6.5.3) (EC 1.6.99.3) (NADH dehydrogenase subunit ...	0.03	-	cyt	0	Mitochondrion				401
Q37714 UniProt NPD GO	NU1M_ARTSF	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	7 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				298
P41296 UniProt NPD GO	NU1M_BALMU	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
P03887 UniProt NPD GO	NU1M_BOVIN	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
P24887 UniProt NPD GO	NU1M_CAEEL	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				291
O03850 UniProt NPD GO	NU1M_CERSI	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q8M896 UniProt NPD GO	NU1M_COEFR	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
P34186 UniProt NPD GO	NU1M_CROLA	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				324
Q8W9N6 UniProt NPD GO	NU1M_DUGDU	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q70Y26 UniProt NPD GO	NU1M_EUPSX	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	9 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
P48900 UniProt NPD GO	NU1M_FELCA	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q37546 UniProt NPD GO	NU1M_LUMTE	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				308
O78705 UniProt NPD GO	NU1M_MACRU	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
O78702 UniProt NPD GO	NU1M_MANTE	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q8M867 UniProt NPD GO	NU1M_MURSU	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
O78697 UniProt NPD GO	NU1M_NYCCO	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	7 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q37717 UniProt NPD GO	NU1M_ORNAN	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
O78710 UniProt NPD GO	NU1M_PERGU	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
P48901 UniProt NPD GO	NU1M_PICCA	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				351
Q96182 UniProt NPD GO	NU1M_POLOR	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				319
Q8M899 UniProt NPD GO	NU1M_PTEGI	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	7 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q96189 UniProt NPD GO	NU1M_RHIUN	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	8 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				318
Q9ZZ54 UniProt NPD GO	NU1M_SQUAC	NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1)	0.03	-	end	7 *	Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable)				324

You are viewing entries 80651 to 80700 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.