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
Q03467 UniProt NPD GO	E13B_PEA	Glucan endo-1,3-beta-glucosidase precursor (EC 3.2.1.39) ((1->3)-beta-glucan endohydrolase) ((1->3)- ...	0.11	-	mit	1 *					370
P14742 UniProt NPD GO	GFA1_YEAST	Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] (EC 2.6.1.16) (Hexosephosphate amin ...	0.11	-	cyt	0					716
Q29492 UniProt NPD GO	G6PD_MACRO	Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) (G6PD)	0.11	-	cyt	0					514
Q4R591 UniProt NPD GO	G6PI_MACFA	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.11	-	cyt	0	Cytoplasm (By similarity)				557
P06744 UniProt NPD GO	G6PI_HUMAN	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.11	-	cyt	0	Cytoplasm		172400	1NUH	557
P91406 UniProt NPD GO	GCP2_CAEEL	Glutamate carboxypeptidase 2 homolog (EC 3.4.17.21) (Glutamate carboxypeptidase II homolog)	0.11	-	nuc	1 *	Membrane; single-pass type II membrane protein	integral to membrane [ISS]			770
P00366 UniProt NPD GO	DHE3_BOVIN	Glutamate dehydrogenase 1, mitochondrial precursor (EC 1.4.1.3) (GDH)	0.11	-	cyt	0	Mitochondrion; mitochondrial matrix			1NR7	558
Q64I01 UniProt NPD GO	DHE4_GORGO	Glutamate dehydrogenase 2, mitochondrial precursor (EC 1.4.1.3) (GDH)	0.11	-	mit	0	Mitochondrion; mitochondrial matrix (By similarity)				558
P49448 UniProt NPD GO	DHE4_HUMAN	Glutamate dehydrogenase 2, mitochondrial precursor (EC 1.4.1.3) (GDH)	0.11	-	mit	0	Mitochondrion; mitochondrial matrix		300144		558
P51121 UniProt NPD GO	GLNA_XENLA	Glutamine synthetase (EC 6.3.1.2) (Glutamate--ammonia ligase)	0.11	-	nuc	0					392
P32288 UniProt NPD GO	GLNA_YEAST	Glutamine synthetase (EC 6.3.1.2) (Glutamate--ammonia ligase) (GS)	0.11	-	cyt	0	Cytoplasm	cytoplasm [IDA]			369
P20477 UniProt NPD GO	GLNA1_DROME	Glutamine synthetase 1, mitochondrial precursor (EC 6.3.1.2) (Glutamate--ammonia ligase 1)	0.11	-	mit	0	Mitochondrion	mitochondrion [IDA]			399
Q6AXW1 UniProt NPD GO	GLRX2_RAT	Glutaredoxin-2, mitochondrial precursor	0.11	-	mit	0	Isoform 1: Mitochondrion (By similarity). Isoform 2: Nucleus (By similarity)				157
P46088 UniProt NPD GO	GST_OMMSL	Glutathione S-transferase (EC 2.5.1.18) (GST class-sigma)	0.11	-	cyt	0	Cytoplasm			2GSQ	203
P19157 UniProt NPD GO	GSTP1_MOUSE	Glutathione S-transferase P 1 (EC 2.5.1.18) (GST YF-YF) (GST-piB) (GST class-pi) (Gst P1) (Preadipoc ...	0.11	-	cyt	0				2GLR	209
Q2NL00 UniProt NPD GO	GSTT1_BOVIN	Glutathione S-transferase theta-1 (EC 2.5.1.18) (GST class-theta-1)	0.11	-	mit	0	Cytoplasm (By similarity)				239
Q61133 UniProt NPD GO	GSTT2_MOUSE	Glutathione S-transferase theta-2 (EC 2.5.1.18) (GST class-theta-2)	0.11	-	mit	0	Cytoplasm. Nucleus				243
P30713 UniProt NPD GO	GSTT2_RAT	Glutathione S-transferase theta-2 (EC 2.5.1.18) (GST class-theta-2) (Glutathione S-transferase 12) ( ...	0.11	-	mit	0	Cytoplasm. Nucleus				243
P00390 UniProt NPD GO	GSHR_HUMAN	Glutathione reductase, mitochondrial precursor (EC 1.8.1.7) (GR) (GRase)	0.11	-	mit	0	Mitochondrion. Cytoplasm		138300	5GRT	522
P10979 UniProt NPD GO	GRPA_MAIZE	Glycine-rich RNA-binding, abscisic acid-inducible protein	0.11	+	cyt	0					157
P27809 UniProt NPD GO	KRE2_YEAST	Glycolipid 2-alpha-mannosyltransferase (EC 2.4.1.131) (Alpha-1,2-mannosyltransferase)	0.11	-	mit	0	Golgi apparatus; Golgi membrane; single-pass type II membrane protein			1S4P	442
P02724 UniProt NPD GO	GLPA_HUMAN	Glycophorin A precursor (PAS-2) (Sialoglycoprotein alpha) (MN sialoglycoprotein) (CD235a antigen)	0.11	-	exc	2 *	Membrane; single-pass type I membrane protein	membrane fraction [TAS] plasma membrane [TAS]	111300	1MSR	150
P52285 UniProt NPD GO	FP21_DICDI	Glycoprotein FP21 precursor	0.11	-	nuc	0	Cytoplasm. Nucleus				162
P69063 UniProt NPD GO	GLHA2_ONCKE	Glycoprotein hormones alpha chain 2 precursor (Gonadotropin 2 alpha chain) (GTH-alpha)	0.11	-	exc	0	Secreted protein				114
P69062 UniProt NPD GO	GLHA2_ONCTS	Glycoprotein hormones alpha chain 2 precursor (Gonadotropin 2 alpha chain) (GTH-alpha)	0.11	-	exc	0	Secreted protein				114
P01218 UniProt NPD GO	GLHA_SHEEP	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.11	-	exc	1 *	Secreted protein				120
Q28365 UniProt NPD GO	GLHA_EQUAS	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.11	-	exc	0	Secreted protein				120
P01220 UniProt NPD GO	GLHA_HORSE	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.11	-	exc	0	Secreted protein				120
O43292 UniProt NPD GO	GPAA1_HUMAN	Glycosylphosphatidylinositol anchor attachment 1 protein (GPI anchor attachment protein 1) (GAA1 pro ...	0.11	-	end	7 *	Endoplasmic reticulum; endoplasmic reticulum membrane; multi-pass membrane protein	GPI-anchor transamidase complex [TAS]	603048		620
O43010 UniProt NPD GO	NMT_SCHPO	Glycylpeptide N-tetradecanoyltransferase (EC 2.3.1.97) (Peptide N-myristoyltransferase) (Myristoyl-C ...	0.11	-	nuc	0	Cytoplasm (By similarity)				466
Q91Z53 UniProt NPD GO	GRHPR_MOUSE	Glyoxylate reductase/hydroxypyruvate reductase (EC 1.1.1.79)	0.11	-	cyt	0					328
Q8VEM1 UniProt NPD GO	GOLI_MOUSE	Goliath homolog precursor (RING finger protein 130) (G1-related zinc finger protein)	0.11	-	mit	2	Membrane; single-pass type I membrane protein (Potential)	integral to membrane [NAS]			419
Q9DG80 UniProt NPD GO	GTHB2_ICTPU	Gonadotropin beta-2 subunit precursor (Gonadotropin beta-II chain) (GTH-II-beta) (GtH beta-2)	0.11	-	exc	0	Secreted protein				140
P30984 UniProt NPD GO	GTHB2_CTEID	Gonadotropin beta-2 subunit precursor (Gonadotropin beta-II chain) (GTH-II-beta) (Luteinizing hormon ...	0.11	-	exc	1 *	Secreted protein				146
P28798 UniProt NPD GO	GRN_MOUSE	Granulins precursor (Proepithelin) (PEPI) (PC cell-derived growth factor) (PCDGF) [Contains: Acrogra ...	0.11	-	exc	0	Secreted protein	extracellular space [IDA] mitochondrion [IDA]			589
P84801 UniProt NPD GO	GRFIN_GRISQ	Griffithsin (GRFT)	0.11	-	cyt	0		cell [IDA]			121
O15496 UniProt NPD GO	PA2GX_HUMAN	Group 10 secretory phospholipase A2 precursor (EC 3.1.1.4) (Group X secretory phospholipase A2) (Pho ...	0.11	-	exc	0	Secreted protein	extracellular region [TAS]	603603	1LE7	155
Q60GI5 UniProt NPD GO	GA45A_FELCA	Growth arrest and DNA-damage-inducible protein GADD45 alpha	0.11	-	cyt	0					165
O75293 UniProt NPD GO	GA45B_HUMAN	Growth arrest and DNA-damage-inducible protein GADD45 beta (Negative growth-regulatory protein MyD11 ...	0.11	-	cyt	0			604948		160
O55235 UniProt NPD GO	GROA_CAVPO	Growth-regulated alpha protein precursor (CXCL1)	0.11	-	exc	0	Secreted protein				104
P79147 UniProt NPD GO	GBB3_CANFA	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta 3 (Transducin beta chain 3)	0.11	-	cyt	0					340
P16520 UniProt NPD GO	GBB3_HUMAN	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta 3 (Transducin beta chain 3)	0.11	-	cyt	0			139130		340
Q61011 UniProt NPD GO	GBB3_MOUSE	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta 3 (Transducin beta chain 3)	0.11	-	cyt	0		heterotrimeric G-protein complex [TAS]			340
P30033 UniProt NPD GO	GNAO2_RAT	Guanine nucleotide-binding protein G(o) subunit alpha 2	0.11	-	cyt	0					353
P93563 UniProt NPD GO	GBB_SOLTU	Guanine nucleotide-binding protein subunit beta	0.11	-	cyt	0					377
P49177 UniProt NPD GO	GBB_ARATH	Guanine nucleotide-binding protein subunit beta (transducin) (AGB1)	0.11	-	cyt	0					377
Q7YR35 UniProt NPD GO	GNL1_PANTR	Guanine nucleotide-binding protein-like 1 (GTP-binding protein HSR1)	0.11	-	nuc	0					430
P36916 UniProt NPD GO	GNL1_MOUSE	Guanine nucleotide-binding protein-like 1 (GTP-binding protein MMR1)	0.11	-	nuc	0					430
P70668 UniProt NPD GO	GUC2B_RAT	Guanylate cyclase activator 2B precursor [Contains: Uroguanylin (UGN)]	0.11	-	exc	0	Secreted protein				106
P14483 UniProt NPD GO	HB2A_MOUSE	H-2 class II histocompatibility antigen, A beta chain precursor	0.11	-	end	1	Membrane; single-pass type I membrane protein (Potential)	early endosome [IDA] external side of plasma membrane [IDA] Golgi apparatus [IDA] integral to membrane [IDA] intracellular [IDA] MHC class II protein complex [IDA] multivesicular body [IDA] plasma membrane [IDA]		1MUJ	265

You are viewing entries 62751 to 62800 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.