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
Q8NH67 UniProt NPD GO	O52I2_HUMAN	Olfactory receptor 52I2	0.00	-	end	7 *	Membrane; multi-pass membrane protein				324
Q8NGH7 UniProt NPD GO	O52L1_HUMAN	Olfactory receptor 52L1	0.00	-	end	7 *	Membrane; multi-pass membrane protein				314
Q8NGH6 UniProt NPD GO	O52L2_HUMAN	Olfactory receptor 52L2	0.00	-	end	7 *	Membrane; multi-pass membrane protein				304
Q8NGK5 UniProt NPD GO	O52M1_HUMAN	Olfactory receptor 52M1 (Olfactory receptor OR11-11)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				317
Q8NH53 UniProt NPD GO	O52N1_HUMAN	Olfactory receptor 52N1	0.00	-	end	7 *	Membrane; multi-pass membrane protein				320
Q8NGI0 UniProt NPD GO	O52N2_HUMAN	Olfactory receptor 52N2	0.00	-	end	7 *	Membrane; multi-pass membrane protein				321
Q8NGI2 UniProt NPD GO	O52N4_HUMAN	Olfactory receptor 52N4	0.00	-	mit	7 *	Membrane; multi-pass membrane protein				321
Q6IF63 UniProt NPD GO	O52W1_HUMAN	Olfactory receptor 52W1 (Olfactory receptor OR11-71)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				320
Q8NGI9 UniProt NPD GO	OR5A2_HUMAN	Olfactory receptor 5A2	0.00	-	end	7 *	Membrane; multi-pass membrane protein				324
Q8NGF4 UniProt NPD GO	O5AP2_HUMAN	Olfactory receptor 5AP2	0.00	-	end	7 *	Membrane; multi-pass membrane protein				316
Q96R08 UniProt NPD GO	OR5BC_HUMAN	Olfactory receptor 5B12 (Olfactory receptor OR11-241)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				314
Q8NGF7 UniProt NPD GO	OR5BH_HUMAN	Olfactory receptor 5B17 (Olfactory receptor OR11-237)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				314
Q8NH48 UniProt NPD GO	OR5B3_HUMAN	Olfactory receptor 5B3 (Olfactory receptor OR11-239)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				314
Q8NGL2 UniProt NPD GO	OR5L1_HUMAN	Olfactory receptor 5L1 (OST262)	0.00	-	end	8 *	Membrane; multi-pass membrane protein				311
Q8NGL0 UniProt NPD GO	OR5L2_HUMAN	Olfactory receptor 5L2 (HTPCRX16)	0.00	-	end	8 *	Membrane; multi-pass membrane protein				311
Q8NGG3 UniProt NPD GO	OR5T3_HUMAN	Olfactory receptor 5T3	0.00	-	end	7 *	Membrane; multi-pass membrane protein				322
O95222 UniProt NPD GO	OR6A2_HUMAN	Olfactory receptor 6A2 (Olfactory receptor 11-55) (OR11-55) (hP2 olfactory receptor)	0.00	-	end	7 *	Membrane; multi-pass membrane protein		608495		327
Q8NGZ6 UniProt NPD GO	OR6F1_HUMAN	Olfactory receptor 6F1 (Olfactory receptor OR1-38)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				308
Q8NGW6 UniProt NPD GO	OR6K6_HUMAN	Olfactory receptor 6K6	0.00	-	end	7 *	Membrane; multi-pass membrane protein				319
Q8NH40 UniProt NPD GO	OR6S1_HUMAN	Olfactory receptor 6S1	0.00	-	end	7 *	Membrane; multi-pass membrane protein				313
Q8N148 UniProt NPD GO	OR6V1_HUMAN	Olfactory receptor 6V1	0.00	-	end	7 *	Membrane; multi-pass membrane protein				313
Q15620 UniProt NPD GO	OR8B8_HUMAN	Olfactory receptor 8B8 (Olfactory receptor TPCR85) (Olfactory-like receptor JCG8)	0.00	-	end	7 *	Membrane; multi-pass membrane protein	integral to membrane [NAS]			311
Q8WZ84 UniProt NPD GO	OR8D1_HUMAN	Olfactory receptor 8D1 (Olfactory receptor-like protein JCG9) (OST004) (Olfactory receptor OR11-301) ...	0.00	-	end	8 *	Membrane; multi-pass membrane protein				308
Q8NG78 UniProt NPD GO	OR8G5_HUMAN	Olfactory receptor 8G5 (Olfactory receptor OR11-298)	0.00	-	end	6 *	Membrane; multi-pass membrane protein				311
Q60885 UniProt NPD GO	OLF9_MOUSE	Olfactory receptor 9 (Olfactory receptor 269-3) (Odorant receptor M25)	0.00	-	end	7 *	Membrane; multi-pass membrane protein				312
Q8NGQ6 UniProt NPD GO	OR9I1_HUMAN	Olfactory receptor 9I1	0.00	-	end	7 *	Membrane; multi-pass membrane protein				314
Q26421 UniProt NPD GO	OLF9_APILI	Olfactory receptor-like protein HbT9 (Fragment)	0.00	-	mit	2 *	Membrane; multi-pass membrane protein (Probable)				85
Q9BJV8 UniProt NPD GO	TOT2A_ATRIL	Omega-atracotoxin-As2a precursor (Omega-AcTx-As2a)	0.00	-	gol	0	Secreted protein				100
Q9BJV7 UniProt NPD GO	TOT2B_ATRIL	Omega-atracotoxin-As2b precursor (Omega-AcTx-As2b)	0.00	-	gol	0	Secreted protein				100
Q9BJV9 UniProt NPD GO	TOT2A_HADIN	Omega-atracotoxin-Hi2a precursor (Omega-AcTx-Hi2a)	0.00	-	exc	0	Secreted protein				102
Q9BJW0 UniProt NPD GO	TOT2B_HADIN	Omega-atracotoxin-Hi2b precursor (Omega-AcTx-Hi2b)	0.00	-	exc	0	Secreted protein				102
P56712 UniProt NPD GO	CXO6A_CONPE	Omega-conotoxin PnVIA	0.00	-	cyt	0	Secreted protein				31
P56713 UniProt NPD GO	CXO6B_CONPE	Omega-conotoxin PnVIB	0.00	-	cyt	0	Secreted protein				30
P56714 UniProt NPD GO	CXO7_CONTE	Omega-conotoxin TxVII	0.00	-	cyt	0	Secreted protein			1F3K	26
Q9XZK8 UniProt NPD GO	CXO1_CONTE	Omega-type conotoxin TxO1 precursor	0.00	-	exc	1 *	Secreted protein (By similarity)				76
Q9XZL1 UniProt NPD GO	CXO4_CONTE	Omega-type conotoxin TxO4 precursor	0.00	-	exc	1 *	Secreted protein (By similarity)				81
Q9XZL3 UniProt NPD GO	CXO6_CONTE	Omega-type conotoxin TxO6 precursor	0.00	-	exc	1 *	Secreted protein (By similarity)				82
Q98892 UniProt NPD GO	OBCAM_CHICK	Opioid-binding protein/cell adhesion molecule homolog precursor (Neurite inhibitor GP55-A) (OBCAM pr ...	0.00	-	mit	1 *	Cell membrane; lipid-anchor; GPI-anchor				337
P11834 UniProt NPD GO	OPCM_BOVIN	Opioid-binding protein/cell adhesion molecule precursor (OBCAM) (Opioid-binding cell adhesion molecu ...	0.00	-	mit	0	Cell membrane; lipid-anchor; GPI-anchor (By similarity)				345
P32736 UniProt NPD GO	OPCM_RAT	Opioid-binding protein/cell adhesion molecule precursor (OBCAM) (Opioid-binding cell adhesion molecu ...	0.00	-	mit	0	Cell membrane; lipid-anchor; GPI-anchor				345
P83313 UniProt NPD GO	OPO1_OPICA	Opistoporin-1	0.00	-	cyt	0	Secreted protein				44
P83314 UniProt NPD GO	OPO2_OPICA	Opistoporin-2	0.00	-	cyt	0	Secreted protein				44
P17645 UniProt NPD GO	OPS3_DROVI	Opsin Rh3 (Inner R7 photoreceptor cells opsin) (Fragment)	0.00	-		0	Membrane; multi-pass membrane protein				12
P91657 UniProt NPD GO	OPS5_DROME	Opsin Rh5	0.00	-	end	6	Membrane; multi-pass membrane protein	rhabdomere [IDA]			382
Q9W6A9 UniProt NPD GO	OP1S1_BRARE	Opsin-1, short-wave-sensitive 1 (Ultraviolet-sensitive opsin) (Ultraviolet cone photoreceptor pigmen ...	0.00	-	end	7 *	Membrane; multi-pass membrane protein	integral to membrane [NAS]			336
Q96BI1 UniProt NPD GO	ORCT2_HUMAN	Organic cation transporter-like protein 2 (Imprinted multi-membrane spanning polyspecific transporte ...	0.00	-	end	9 *	Cell membrane; apical cell membrane; multi-pass membrane protein (Potential). Localized at the apica ...		602631		408
Q7M3V4 UniProt NPD GO	PAO1_VESOR	Orientotoxin-1 (EC 3.1.1.5) (Orientotoxin I) (Lysophospholipase)	0.00	-	cyt	0	Secreted protein				152
Q7M3V3 UniProt NPD GO	PAO2_VESOR	Orientotoxin-2 (EC 3.1.1.4) (Orientotoxin II) (Phospholipase A2)	0.00	-	cyt	0	Secreted protein				139
Q92413 UniProt NPD GO	OAT_EMENI	Ornithine aminotransferase (EC 2.6.1.13) (Ornithine--oxo-acid aminotransferase)	0.00	-	cyt	0	Cytoplasm				453
P49724 UniProt NPD GO	OAT_DROAN	Ornithine aminotransferase, mitochondrial precursor (EC 2.6.1.13) (Ornithine--oxo-acid aminotransfer ...	0.00	-	mit	0	Mitochondrion; mitochondrial matrix				432

You are viewing entries 96151 to 96200 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.