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
Q9MA93 UniProt NPD GO	GRDH2_ARATH	Glucose and ribitol dehydrogenase homolog 2 (EC 1.1.1.-)	0.00	-	cyt	0					289
P18173 UniProt NPD GO	DHGL_DROME	Glucose dehydrogenase [acceptor] precursor (EC 1.1.99.10) [Contains: Glucose dehydrogenase [acceptor ...	0.00	-	cyt	0	Secreted protein. Secreted as part of the seminal fluid transferred to females				625
P18172 UniProt NPD GO	DHGL_DROPS	Glucose dehydrogenase [acceptor] precursor (EC 1.1.99.10) [Contains: Glucose dehydrogenase [acceptor ...	0.00	-	cyt	0	Secreted protein. Secreted as part of the seminal fluid transferred to females				625
P13006 UniProt NPD GO	GOX_ASPNG	Glucose oxidase precursor (EC 1.1.3.4) (Glucose oxyhydrase) (GOD) (Beta-D-glucose:oxygen 1-oxido-red ...	0.00	-	exc	0	Secreted protein			1GAL	605
Q09039 UniProt NPD GO	TH23_TRYBB	Glucose transporter 2C (Fragment)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				337
P55242 UniProt NPD GO	GLGL2_SOLTU	Glucose-1-phosphate adenylyltransferase large subunit 2, chloroplast precursor (EC 2.7.7.27) (ADP-gl ...	0.00	-	cyt	0	Plastid; chloroplast. Found in the chloroplast in leaf. Plastid; amyloplast. Found in the plastid in ...				519
O42154 UniProt NPD GO	G6PT_HAPXE	Glucose-6-phosphatase (EC 3.1.3.9) (G6Pase) (G-6-Pase) (Fragment)	0.00	-	end	5 *	Endoplasmic reticulum; endoplasmic reticulum membrane; multi-pass membrane protein				277
Q23711 UniProt NPD GO	G6PD_CULPI	Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) (G6PD) (Zwischenferment) (Fragment)	0.00	-	cyt	0					153
Q6FRW1 UniProt NPD GO	G6PI_CANGA	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.00	-	cyt	0	Cytoplasm (By similarity)				555
Q7S986 UniProt NPD GO	G6PI_NEUCR	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.00	-	cyt	0	Cytoplasm (By similarity)				561
P12709 UniProt NPD GO	G6PI_YEAST	Glucose-6-phosphate isomerase (EC 5.3.1.9) (GPI) (Phosphoglucose isomerase) (PGI) (Phosphohexose iso ...	0.00	-	cyt	0	Cytoplasm				553
P42994 UniProt NPD GO	OXYT_RAJCL	Glumitocin	0.00	-		0	Secreted protein				9
P52596 UniProt NPD GO	DHE3_VITVI	Glutamate dehydrogenase (EC 1.4.1.3) (GDH)	0.00	-	cyt	0					411
P42174 UniProt NPD GO	DHE3_PIG	Glutamate dehydrogenase 1 (EC 1.4.1.3) (GDH) (Membrane protein 50) (MP50) (Fragments)	0.00	-	cyt	0	Membrane; peripheral membrane protein				33
Q38946 UniProt NPD GO	DHE2_ARATH	Glutamate dehydrogenase 2 (EC 1.4.1.3) (GDH 2)	0.00	-	cyt	0	Mitochondrion				411
O04937 UniProt NPD GO	DHEA_NICPL	Glutamate dehydrogenase A (EC 1.4.1.3) (GDH A)	0.00	-	cyt	0					411
P18492 UniProt NPD GO	GSA_HORVU	Glutamate-1-semialdehyde 2,1-aminomutase, chloroplast precursor (EC 5.4.3.8) (GSA) (Glutamate-1-semi ...	0.00	-	mit	0	Plastid; chloroplast				469
Q6YZE2 UniProt NPD GO	GSA_ORYSA	Glutamate-1-semialdehyde 2,1-aminomutase, chloroplast precursor (EC 5.4.3.8) (GSA) (Glutamate-1-semi ...	0.00	-	mit	0	Plastid; chloroplast (Potential)				478
P81643 UniProt NPD GO	GLNA2_EMIHU	Glutamine synthetase 2 isozyme (EC 6.3.1.2) (Glutamate--ammonia ligase) (Chloroplast GS2) (Fragment) ...	0.00	-	cyt	0	Plastid; chloroplast				25
P55142 UniProt NPD GO	GLRX_ORYSA	Glutaredoxin	0.00	-	cyt	0	Cytoplasm (By similarity)				112
O36032 UniProt NPD GO	GLRX1_SCHPO	Glutaredoxin-1	0.00	-	cyt	0		cytosol [IDA]			101
Q96324 UniProt NPD GO	GSTF7_ARATH	Glutathione S-transferase (EC 2.5.1.18) (GST class-phi)	0.00	-	cyt	0	Cytoplasm (Probable)				214
P48438 UniProt NPD GO	GSTF_BRAOT	Glutathione S-transferase (EC 2.5.1.18) (GST class-phi) (Fragments)	0.00	-	cyt	0	Cytoplasm				76
P46428 UniProt NPD GO	GST_ANOGA	Glutathione S-transferase (EC 2.5.1.18) (GST class-sigma) (Fragment)	0.00	-	mit	0					218
P46436 UniProt NPD GO	GST1_ASCSU	Glutathione S-transferase 1 (EC 2.5.1.18) (GST class-sigma)	0.00	-	cyt	0					205
P30113 UniProt NPD GO	GST28_SCHBO	Glutathione S-transferase 28 kDa (EC 2.5.1.18) (GST 28) (GST class-mu)	0.00	-	cyt	0				2CAQ	211
P30114 UniProt NPD GO	GST28_SCHHA	Glutathione S-transferase 28 kDa (EC 2.5.1.18) (GST 28) (GST class-mu)	0.00	-	cyt	0				1OE8	211
P09792 UniProt NPD GO	GST28_SCHMA	Glutathione S-transferase 28 kDa (EC 2.5.1.18) (GST 28) (SM28 antigen) (Protective 28 kDa antigen) ( ...	0.00	-	cyt	0				1U3I	211
P82608 UniProt NPD GO	GST82_DICLA	Glutathione S-transferase 8.2 (EC 2.5.1.18) (GST-8.2) (GST class-alpha) (Fragments)	0.00	-	cyt	0	Cytoplasm				32
Q9VG97 UniProt NPD GO	GSTT3_DROME	Glutathione S-transferase D3 (EC 2.5.1.18) (DmGST22)	0.00	-	cyt	0					199
P24473 UniProt NPD GO	GSTK1_RAT	Glutathione S-transferase kappa 1 (EC 2.5.1.18) (GST 13-13) (Glutathione S-transferase subunit 13) ( ...	0.00	-	cyt	0	Mitochondrion; mitochondrial matrix			1R4W	225
O73888 UniProt NPD GO	PTGD2_CHICK	Glutathione-requiring prostaglandin D synthase (EC 5.3.99.2) (Glutathione-dependent PGD synthetase) ...	0.00	-	cyt	0	Cytoplasm				198
P54118 UniProt NPD GO	G3P_NEUCR	Glyceraldehyde 3-phosphate-dehydrogenase (EC 1.2.1.12) (GAPDH) (Clock-controlled protein 7)	0.00	-	cyt	0	Cytoplasm				338
O01360 UniProt NPD GO	G3P_ONCVO	Glyceraldehyde 3-phosphate-dehydrogenase (EC 1.2.1.12) (GAPDH) (Larval antigen OvB95)	0.00	-	cyt	0	Cytoplasm (By similarity)				339
Q757I2 UniProt NPD GO	G3P_ASHGO	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	mit	0	Cytoplasm (By similarity)				331
P34783 UniProt NPD GO	G3P_ATRNU	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	nuc	0					360
P10096 UniProt NPD GO	G3P_BOVIN	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				332
P48812 UniProt NPD GO	G3P_BRUMA	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				339
Q92211 UniProt NPD GO	G3P_CANAL	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	mit	0	Cytoplasm. Cell wall				331
Q28259 UniProt NPD GO	G3P_CANFA	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				332
P00356 UniProt NPD GO	G3P_CHICK	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm	cytoplasm [ISS] mitochondrion [ISS]			332
Q00584 UniProt NPD GO	G3P_CLAPU	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				337
P29497 UniProt NPD GO	G3P_COCHE	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				337
P35143 UniProt NPD GO	G3P_COLGL	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				338
O57479 UniProt NPD GO	G3P_COLLI	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				332
P54117 UniProt NPD GO	G3P_COLLN	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm (By similarity)				337
Q05025 UniProt NPD GO	G3P_COTJA	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				332
P17244 UniProt NPD GO	G3P_CRIGR	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm				332
Q9Y796 UniProt NPD GO	G3P_CRYCU	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm (By similarity)				337
Q9Y8E9 UniProt NPD GO	G3P_CRYNE	Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) (GAPDH)	0.00	-	cyt	0	Cytoplasm (By similarity)				339

You are viewing entries 94751 to 94800 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.