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
Q92452 UniProt NPD GO	GOX_TALFL	Glucose oxidase precursor (EC 1.1.3.4) (Glucose oxyhydrase) (GOD) (Beta-D-glucose:oxygen 1-oxido-red ...	0.05	-	mit	0					605
P55230 UniProt NPD GO	GLGL2_ARATH	Glucose-1-phosphate adenylyltransferase large subunit 2, chloroplast precursor (EC 2.7.7.27) (ADP-gl ...	0.05	-	cyt	0	Plastid; chloroplast				518
P43428 UniProt NPD GO	G6PT_RAT	Glucose-6-phosphatase (EC 3.1.3.9) (G6Pase) (G-6-Pase)	0.05	-	end	9 *	Endoplasmic reticulum; endoplasmic reticulum membrane; multi-pass membrane protein				357
Q9HGZ2 UniProt NPD GO	G6PI_ASPOR	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.05	-	cyt	0	Cytoplasm (By similarity)				553
Q3ZBD7 UniProt NPD GO	G6PI_BOVIN	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.05	-	nuc	0	Cytoplasm (By similarity)				556
O82059 UniProt NPD GO	G6PI_SPIOL	Glucose-6-phosphate isomerase, cytosolic (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosph ...	0.05	-	cyt	0	Cytoplasm (By similarity)				566
P54235 UniProt NPD GO	G6PI1_CLACO	Glucose-6-phosphate isomerase, cytosolic 1 (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phos ...	0.05	-	cyt	0	Cytoplasm (By similarity)				569
Q64HZ9 UniProt NPD GO	DHE4_HYLLA	Glutamate dehydrogenase 2, mitochondrial precursor (EC 1.4.1.3) (GDH)	0.05	-	mit	0	Mitochondrion; mitochondrial matrix (By similarity)				555
O94925 UniProt NPD GO	GLSK_HUMAN	Glutaminase kidney isoform, mitochondrial precursor (EC 3.5.1.2) (GLS) (L-glutamine amidohydrolase) ...	0.05	-	nuc	0		mitochondrion [NAS]	138280		669
P04770 UniProt NPD GO	GLNA1_PHAVU	Glutamine synthetase PR-1 (EC 6.3.1.2) (Gln isozyme beta) (Glutamate--ammonia ligase)	0.05	-	cyt	0	Cytoplasm				356
Q56WN1 UniProt NPD GO	GLN11_ARATH	Glutamine synthetase cytosolic isozyme 1-1 (EC 6.3.1.2) (GLN1;1) (Glutamate--ammonia ligase GLN1;1)	0.05	-	cyt	0	Cytoplasm				356
Q8LCE1 UniProt NPD GO	GLN12_ARATH	Glutamine synthetase cytosolic isozyme 1-2 (EC 6.3.1.2) (GLN1;2) (Glutamate--ammonia ligase GLN1;2)	0.05	-	nuc	0	Cytoplasm				356
Q9FMD9 UniProt NPD GO	GLN14_ARATH	Glutamine synthetase cytosolic isozyme 1-4 (EC 6.3.1.2) (GLN1;4) (Glutamate--ammonia ligase GLN1;4)	0.05	-	cyt	0	Cytoplasm				356
P52782 UniProt NPD GO	GLNA_LUPLU	Glutamine synthetase nodule isozyme (EC 6.3.1.2) (Glutamate--ammonia ligase) (GS)	0.05	-	cyt	0	Cytoplasm				353
P49294 UniProt NPD GO	HEM12_ARATH	Glutamyl-tRNA reductase 2, chloroplast precursor (EC 1.2.1.70) (GluTR)	0.05	-	cyt	0	Plastid; chloroplast (By similarity)				530
Q9UTI2 UniProt NPD GO	GLRX2_SCHPO	Glutaredoxin-2	0.05	-	nuc	0		mitochondrion [IDA]			110
Q93112 UniProt NPD GO	GSTT5_ANOGA	Glutathione S-transferase 1-5 (EC 2.5.1.18) (GST class-theta)	0.05	-	cyt	0					209
O16115 UniProt NPD GO	GST2_CAEEL	Glutathione S-transferase 2 (EC 2.5.1.18) (GST class-sigma) (CeGST2)	0.05	-	cyt	0					188
Q03425 UniProt NPD GO	GSTZ2_DIACA	Glutathione S-transferase 2 (EC 2.5.1.18) (GST class-zeta) (Fragment)	0.05	-	cyt	0					145
P26624 UniProt NPD GO	GST28_SCHJA	Glutathione S-transferase 28 kDa (EC 2.5.1.18) (GST 28) (SJ28 antigen) (GST class-mu) (Fragment)	0.05	-	cyt	0					206
Q9VG93 UniProt NPD GO	GSTT7_DROME	Glutathione S-transferase D7 (EC 2.5.1.18) (DmGST26)	0.05	-	cyt	0					224
P04906 UniProt NPD GO	GSTP1_RAT	Glutathione S-transferase P (EC 2.5.1.18) (GST 7-7) (Chain 7) (GST class-pi)	0.05	-	cyt	0					209
P46424 UniProt NPD GO	GSTP1_CRILO	Glutathione S-transferase P (EC 2.5.1.18) (GST class-pi)	0.05	-	cyt	0					209
P30115 UniProt NPD GO	GSTA3_MOUSE	Glutathione S-transferase Yc (EC 2.5.1.18) (GST class-alpha) (Ya3)	0.05	-	cyt	0	Cytoplasm				220
Q64471 UniProt NPD GO	GSTT1_MOUSE	Glutathione S-transferase theta-1 (EC 2.5.1.18) (GST class-theta-1)	0.05	-	mit	0	Cytoplasm. Nucleus				239
Q9ZVQ3 UniProt NPD GO	GSTZ1_ARATH	Glutathione S-transferase zeta-class 1 (EC 2.5.1.18) (AtGSTZ1) (Maleylacetone isomerase) (EC 5.2.1.- ...	0.05	-	cyt	0	Cytoplasm (By similarity)			1E6B	221
P00435 UniProt NPD GO	GPX1_BOVIN	Glutathione peroxidase 1 (EC 1.11.1.9) (GSHPx-1) (GPx-1) (Cellular glutathione peroxidase)	0.05	-	exc	0	Cytoplasm			1GP1	205
Q4AEI3 UniProt NPD GO	GPX1_PONPY	Glutathione peroxidase 1 (EC 1.11.1.9) (GSHPx-1) (GPx-1) (Cellular glutathione peroxidase)	0.05	-	mit	0	Cytoplasm (By similarity)				201
P59796 UniProt NPD GO	GPX6_HUMAN	Glutathione peroxidase 6 precursor (EC 1.11.1.9)	0.05	-	exc	0	Secreted protein (By similarity)		607913		221
Q873E8 UniProt NPD GO	GSHR_NEUCR	Glutathione reductase (EC 1.8.1.7) (GR) (GRase)	0.05	-	cyt	0	Cytoplasm (By similarity)				468
P41921 UniProt NPD GO	GSHR_YEAST	Glutathione reductase (EC 1.8.1.7) (GR) (GRase)	0.05	-	mit	0	Cytoplasm (By similarity)	cytoplasm [IDA] mitochondrion [IDA] nucleus [IDA]			483
P70619 UniProt NPD GO	GSHR_RAT	Glutathione reductase (EC 1.8.1.7) (GR) (GRase) (Fragment)	0.05	-	nuc	0					424
O04955 UniProt NPD GO	GSHRC_BRARP	Glutathione reductase, cytosolic (EC 1.8.1.7) (GR) (GRase)	0.05	-	mit	0	Cytoplasm (Potential)				502
P81716 UniProt NPD GO	GPR_SCHGR	Glycine-proline-rich protein (Fragment)	0.05	-	cyt	0					30
P59760 UniProt NPD GO	GLYL_BOVIN	Glycolactin (EC 3.1.27.-) (Fragments)	0.05	-	cyt	0	Secreted protein				49
P37036 UniProt NPD GO	GLHA_BALAC	Glycoprotein hormones alpha chain (Anterior pituitary glycoprotein hormones common subunit alpha) (F ...	0.05	-	nuc	0	Secreted protein				96
P80665 UniProt NPD GO	GLHA_STRCA	Glycoprotein hormones alpha chain (Anterior pituitary glycoprotein hormones common subunit alpha) (F ...	0.05	-	nuc	0	Secreted protein				96
Q8HZS0 UniProt NPD GO	GLHA_AILFU	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
Q9XSW8 UniProt NPD GO	GLHA_CANFA	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
Q52R91 UniProt NPD GO	GLHA_FELCA	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
P68267 UniProt NPD GO	GLHA_MACRU	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein (By similarity)				120
Q9ERJ6 UniProt NPD GO	GLHA_MERUN	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
Q9ERG5 UniProt NPD GO	GLHA_MESAU	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
Q6YNX4 UniProt NPD GO	GLHA_MONDO	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
P01216 UniProt NPD GO	GLHA_MOUSE	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
P07474 UniProt NPD GO	GLHA_RABIT	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein				120
P68268 UniProt NPD GO	GLHA_TRIVU	Glycoprotein hormones alpha chain precursor (Anterior pituitary glycoprotein hormones common subunit ...	0.05	-	exc	1 *	Secreted protein (By similarity)				120
P0C148 UniProt NPD GO	GPI11_MAGGR	Glycosylphosphatidylinositol anchor biosynthesis protein 11	0.05	-	end	6 *	Endoplasmic reticulum; endoplasmic reticulum membrane; multi-pass membrane protein (By similarity)				256
P48252 UniProt NPD GO	GTHB1_ONCMA	Gonadotropin beta-1 subunit precursor (Gonadotropin beta-I chain) (GTH-I-beta)	0.05	-	exc	0	Secreted protein				137
Q95JG1 UniProt NPD GO	GNRR2_MACMU	Gonadotropin-releasing hormone II receptor (Type II GnRH receptor) (GnRH-II-R)	0.05	-	end	7 *	Membrane; multi-pass membrane protein				379

You are viewing entries 74501 to 74550 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.