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
P25225 UniProt NPD GO	NO3_PEA	Nodulin 3 precursor (N-3)	0.03	-	gol	1 *					69
Q7RTP0 UniProt NPD GO	NIPA1_HUMAN	Non-imprinted in Prader-Willi/Angelman syndrome region protein 1	0.03	-	end	8 *	Membrane; multi-pass membrane protein (Potential)		608145		329
Q8BHK1 UniProt NPD GO	NIPA1_MOUSE	Non-imprinted in Prader-Willi/Angelman syndrome region protein 1 homolog	0.03	-	end	8 *	Membrane; multi-pass membrane protein (Potential)				323
Q94FT7 UniProt NPD GO	HBL4_ORYSA	Non-symbiotic hemoglobin 4 (rHb4) (ORYsa GLB1d)	0.03	-	cyt	0					167
Q42589 UniProt NPD GO	NLTP1_ARATH	Nonspecific lipid-transfer protein 1 precursor (LTP 1)	0.03	-	nuc	0	Cell wall				118
Q43017 UniProt NPD GO	NLTP1_PRUDU	Nonspecific lipid-transfer protein 1 precursor (LTP 1)	0.03	-	exc	1 *					117
Q9S7I3 UniProt NPD GO	NLTP2_ARATH	Nonspecific lipid-transfer protein 2 precursor (LTP 2)	0.03	-	nuc	0					118
Q03461 UniProt NPD GO	NLTP2_TOBAC	Nonspecific lipid-transfer protein 2 precursor (LTP 2)	0.03	-	exc	0					114
Q43304 UniProt NPD GO	NLTPD_BRAOT	Nonspecific lipid-transfer protein D precursor (LTP D) (Wax-associated protein 9D)	0.03	-	nuc	0					118
Q43119 UniProt NPD GO	NLTPD_RICCO	Nonspecific lipid-transfer protein D, cotyledon-specific isoform precursor (NS-LTP D)	0.03	-	exc	1 *					116
P80273 UniProt NPD GO	NLTP3_VITSX	Nonspecific lipid-transfer protein P3 (LTP P3) (Fragment)	0.03	-	nuc	0					37
Q9M5X7 UniProt NPD GO	NLTP_MALDO	Nonspecific lipid-transfer protein precursor (LTP) (Allergen Mal d 3)	0.03	-	exc	0					115
Q55TS8 UniProt NPD GO	NUDF_CRYNE	Nuclear distribution protein PAC1 (nudF homolog)	0.03	-	cyt	0	Cytoplasm. Localizes to the plus ends of microtubules and the mitotic spindle poles (By similarity)				433
Q6CG48 UniProt NPD GO	NUDF_YARLI	Nuclear distribution protein PAC1 (nudF homolog)	0.03	-	cyt	0	Cytoplasm. Localizes to the plus ends of microtubules and the mitotic spindle poles (By similarity)				437
Q9FGP6 UniProt NPD GO	NFYC5_ARATH	Nuclear transcription factor Y subunit C-5 (AtNF-YC-5)	0.03	-	cyt	0	Nucleus (By similarity)				186
Q9C7F5 UniProt NPD GO	NTF2_ARATH	Nuclear transport factor 2 (NTF-2)	0.03	-	cyt	0	Cytoplasm (By similarity)				126
Q6CC82 UniProt NPD GO	NTF2_YARLI	Nuclear transport factor 2 (NTF-2)	0.03	-	mit	0	Cytoplasm (By similarity)				123
O42584 UniProt NPD GO	NO29_XENLA	Nucleoplasmin-like protein NO29 (NOVA)	0.03	-	nuc	0	Nucleus; nucleolus				183
Q39839 UniProt NPD GO	NDK1_SOYBN	Nucleoside diphosphate kinase 1 (EC 2.7.4.6) (Nucleoside diphosphate kinase I) (NDK I) (NDP kinase I ...	0.03	-	cyt	0					149
Q9WV84 UniProt NPD GO	NDKM_MOUSE	Nucleoside diphosphate kinase, mitochondrial precursor (EC 2.7.4.6) (NDP kinase, mitochondrial) (NDK ...	0.03	-	mit	0	Mitochondrion; mitochondrial intermembrane space (By similarity)				186
Q6FUS3 UniProt NPD GO	SIL1_CANGA	Nucleotide exchange factor SIL1 precursor	0.03	-	mit	1 *	Endoplasmic reticulum; endoplasmic reticulum lumen (By similarity)				339
P53384 UniProt NPD GO	NUBP1_HUMAN	Nucleotide-binding protein 1 (NBP 1)	0.03	-	cyt	0			600280		320
Q9SJC4 UniProt NPD GO	NUDT6_ARATH	Nudix hydrolase 6 (EC 3.6.1.-) (AtNUDT6) (ADP-ribose pyrophosphatase) (EC 3.6.1.13) (NADH pyrophosph ...	0.03	-	cyt	0					283
Q9SU14 UniProt NPD GO	NUDT7_ARATH	Nudix hydrolase 7 (EC 3.6.1.-) (AtNUDT7) (ADP-ribose pyrophosphatase) (EC 3.6.1.13) (NADH pyrophosph ...	0.03	-	cyt	0					282
P50125 UniProt NPD GO	CYSD_EMENI	O-acetylhomoserine (thiol)-lyase (EC 2.5.1.49) (O-acetylhomoserine sulfhydrylase) (OAH sulfhydrylase ...	0.03	-	cyt	0					437
Q9VNB5 UniProt NPD GO	OR83B_DROME	Odorant receptor 83b	0.03	-	end	7 *	Membrane; multi-pass membrane protein (Potential)				486
P08937 UniProt NPD GO	OBP_RAT	Odorant-binding protein precursor (OBP)	0.03	-	exc	0	Secreted protein				172
P83234 UniProt NPD GO	OHIN_OPHHA	Ohanin	0.03	-	cyt	0	Secreted protein	extracellular region [NAS]			107
Q8VF13 UniProt NPD GO	O1094_MOUSE	Olfactory receptor 1094 (Olfactory receptor 179-7)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				330
Q9H209 UniProt NPD GO	O10A4_HUMAN	Olfactory receptor 10A4 (HP2) (Olfactory receptor-like protein JCG5)	0.03	-	end	6 *	Membrane; multi-pass membrane protein				315
Q8NGS4 UniProt NPD GO	O13F1_HUMAN	Olfactory receptor 13F1	0.03	-	end	7 *	Membrane; multi-pass membrane protein				319
Q60893 UniProt NPD GO	OL151_MOUSE	Olfactory receptor 151 (Olfactory receptor 7H) (Olfactory receptor 171-2) (Odorant receptor M71)	0.03	-	end	6 *	Membrane; multi-pass membrane protein				309
Q8NGR3 UniProt NPD GO	OR1K1_HUMAN	Olfactory receptor 1K1	0.03	-	end	7 *	Membrane; multi-pass membrane protein				316
Q8NGS0 UniProt NPD GO	OR1N1_HUMAN	Olfactory receptor 1N1 (Olfactory receptor 1-26) (OR1-26) (Olfactory receptor 1N3) (Olfactory recept ...	0.03	-	end	7 *	Membrane; multi-pass membrane protein				311
Q15612 UniProt NPD GO	OR1Q1_HUMAN	Olfactory receptor 1Q1 (Olfactory receptor TPCR106) (Olfactory receptor 9-A) (OR9-A) (OST226) (Olfac ...	0.03	-	end	7 *	Membrane; multi-pass membrane protein	integral to membrane [NAS]			314
O95047 UniProt NPD GO	OR2A4_HUMAN	Olfactory receptor 2A4 (Olfactory receptor OR6-37)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				310
Q96R45 UniProt NPD GO	OR2A7_HUMAN	Olfactory receptor 2A7	0.03	-	end	6 *	Membrane; multi-pass membrane protein				310
Q5JQS5 UniProt NPD GO	OR2BB_HUMAN	Olfactory receptor 2B11	0.03	-	end	7 *	Membrane; multi-pass membrane protein				317
P58173 UniProt NPD GO	OR2B6_HUMAN	Olfactory receptor 2B6 (Olfactory receptor 6-31) (OR6-31) (Olfactory receptor 5-40) (OR5-40) (Hs6M1- ...	0.03	-	end	7 *	Membrane; multi-pass membrane protein				313
Q9NQN1 UniProt NPD GO	OR2S1_HUMAN	Olfactory receptor 2S2 (Olfactory receptor OR9-3)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				319
Q8NH02 UniProt NPD GO	O2T29_HUMAN	Olfactory receptor 2T29	0.03	-	end	6 *	Membrane; multi-pass membrane protein				315
Q8NH00 UniProt NPD GO	OR2T4_HUMAN	Olfactory receptor 2T4 (Olfactory receptor OR1-60)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				320
Q8NG97 UniProt NPD GO	OR2Z1_HUMAN	Olfactory receptor 2Z1 (Olfactory receptor OR19-4)	0.03	-	end	6 *	Membrane; multi-pass membrane protein				314
P47888 UniProt NPD GO	OR3A3_HUMAN	Olfactory receptor 3A3 (Olfactory receptor 17-201) (OR17-201)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				315
P47883 UniProt NPD GO	OR3A4_HUMAN	Olfactory receptor 3A4 (Olfactory receptor 17-24) (OR17-24)	0.03	-	end	7 *	Membrane; multi-pass membrane protein	integral to membrane [NAS]			348
Q8VG03 UniProt NPD GO	OL482_MOUSE	Olfactory receptor 482 (Olfactory receptor 204-14)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				323
Q8VG05 UniProt NPD GO	OL483_MOUSE	Olfactory receptor 483 (Olfactory receptor 204-12)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				315
Q8VFD1 UniProt NPD GO	OL492_MOUSE	Olfactory receptor 492 (Olfactory receptor 204-18)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				314
Q8VG07 UniProt NPD GO	OL494_MOUSE	Olfactory receptor 494 (Olfactory receptor 204-10)	0.03	-	end	7 *	Membrane; multi-pass membrane protein				314
Q8VG08 UniProt NPD GO	OL497_MOUSE	Olfactory receptor 497 (Olfactory receptor 204-9)	0.03	-	end	5 *	Membrane; multi-pass membrane protein				314

You are viewing entries 80801 to 80850 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.