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
P26012 UniProt NPD GO	ITB8_HUMAN	Integrin beta-8 precursor	0.21	-	exc	1	Membrane; single-pass type I membrane protein	integrin complex [TAS]	604160		769
Q3SWY2 UniProt NPD GO	ILK_BOVIN	Integrin-linked protein kinase (EC 2.7.11.1)	0.21	-	cyt	0	Cytoplasm (By similarity)				452
Q13418 UniProt NPD GO	ILK1_HUMAN	Integrin-linked protein kinase 1 (EC 2.7.11.1) (ILK-1) (59 kDa serine/threonine-protein kinase) (p59 ...	0.21	-	cyt	0	Cytoplasm		602366		452
Q9N2J0 UniProt NPD GO	IFNB_FELCA	Interferon beta precursor (IFN-beta)	0.21	-	end	1 *	Secreted protein				186
P27473 UniProt NPD GO	IFI44_PANTR	Interferon-induced protein 44 (Antigen p44) (Non-A non-B hepatitis-associated microtubular aggregate ...	0.21	-	cyt	0	Cytoplasm (Potential)				444
Q9YGD3 UniProt NPD GO	IL1B_ONCMY	Interleukin-1 beta precursor	0.21	-	nuc	0					260
P79162 UniProt NPD GO	IL1B_CAPHI	Interleukin-1 beta precursor (IL-1 beta)	0.21	-	cyt	0	Secreted protein. The lack of a specific hydrophobic segment in the precursor sequence suggests that ...				266
P18510 UniProt NPD GO	IL1RA_HUMAN	Interleukin-1 receptor antagonist protein precursor (IL-1ra) (IRAP) (IL1 inhibitor) (IL-1RN) (ICIL-1 ...	0.21	-	end	0	Isoform 1: Secreted protein. Isoform 2, isoform 3, isoform 4: Cytoplasm	extracellular space [TAS] intracellular [NAS]	147679	2IRT	177
P14778 UniProt NPD GO	IL1R1_HUMAN	Interleukin-1 receptor type I precursor (IL-1R-1) (IL-1RT1) (IL-1R-alpha) (p80) (CD121a antigen)	0.21	-	end	1	Membrane; single-pass type I membrane protein	integral to plasma membrane [TAS]	147810	1ITB	569
P46651 UniProt NPD GO	IL10_CERTO	Interleukin-10 precursor (IL-10) (Cytokine synthesis inhibitory factor) (CSIF)	0.21	-	exc	0	Secreted protein				178
Q865X4 UniProt NPD GO	IL10_LAMGL	Interleukin-10 precursor (IL-10) (Cytokine synthesis inhibitory factor) (CSIF)	0.21	-	end	0	Secreted protein				178
P18893 UniProt NPD GO	IL10_MOUSE	Interleukin-10 precursor (IL-10) (Cytokine synthesis inhibitory factor) (CSIF)	0.21	-	exc	0	Secreted protein	extracellular region [ISS] extracellular space [IDA]			178
O46673 UniProt NPD GO	IL10_ORCOR	Interleukin-10 precursor (IL-10) (Cytokine synthesis inhibitory factor) (CSIF) (Fragment)	0.21	-	exc	0	Secreted protein				164
Q61453 UniProt NPD GO	IL17_RAT	Interleukin-17A precursor (IL-17A) (IL-17) (Cytotoxic T-lymphocyte-associated antigen 8) (CTLA-8)	0.21	-	exc	0	Secreted protein				150
Q95J76 UniProt NPD GO	IL5_CANFA	Interleukin-5 precursor (IL-5) (T-cell replacing factor) (TRF) (Eosinophil differentiation factor)	0.21	-	exc	0	Secreted protein				134
P41323 UniProt NPD GO	IL6_CANFA	Interleukin-6 precursor (IL-6)	0.21	-	exc	0	Secreted protein				207
Q28319 UniProt NPD GO	IL6_CAPHI	Interleukin-6 precursor (IL-6)	0.21	-	exc	0	Secreted protein				208
P29455 UniProt NPD GO	IL6_SHEEP	Interleukin-6 precursor (IL-6)	0.21	-	exc	0	Secreted protein				208
P13232 UniProt NPD GO	IL7_HUMAN	Interleukin-7 precursor (IL-7)	0.21	-	exc	0	Secreted protein	extracellular region [TAS]	146660	1IL7	177
P49113 UniProt NPD GO	IL8_CAVPO	Interleukin-8 precursor (IL-8) (CXCL8) (Neutrophil attractant protein 1) (NAP-1)	0.21	-	vac	1 *	Secreted protein				101
P13943 UniProt NPD GO	MMP1_RABIT	Interstitial collagenase precursor (EC 3.4.24.7) (Matrix metalloproteinase-1) (MMP-1)	0.21	-	exc	0					468
O43045 UniProt NPD GO	ISA2_SCHPO	Iron sulfur assembly protein 2	0.21	-	mit	0	Mitochondrion; mitochondrial matrix (By similarity)				205
P12967 UniProt NPD GO	IAPP_FELCA	Islet amyloid polypeptide precursor (Amylin)	0.21	-	exc	0	Secreted protein				89
Q9SE26 UniProt NPD GO	ACEA_DENCR	Isocitrate lyase (EC 4.1.3.1) (Isocitrase) (Isocitratase) (ICL)	0.21	-	exc	0	Glyoxysome				574
Q8NJ72 UniProt NPD GO	ACEA_KLULA	Isocitrate lyase (EC 4.1.3.1) (Isocitrase) (Isocitratase) (ICL)	0.21	-	cyt	0	Peroxisome (By similarity)				542
P15210 UniProt NPD GO	NEU1_CATCO	Isoticin-neurophysin IT 1 precursor [Contains: Isotocin (IT); Neurophysin IT 1]	0.21	-	exc	0					154
P09231 UniProt NPD GO	KEX1_KLULA	KEX1 protease precursor (EC 3.4.21.-)	0.21	-	cyt	1					756
Q95199 UniProt NPD GO	CASK_MUNRE	Kappa-casein (Fragment)	0.21	-	mit	0	Secreted protein				122
Q29135 UniProt NPD GO	CASK_TAPIN	Kappa-casein (Fragment)	0.21	-	nuc	0	Secreted protein				146
Q14145 UniProt NPD GO	KEAP1_HUMAN	Kelch-like ECH-associated protein 1 (Cytosolic inhibitor of Nrf2) (Kelch-like protein 19)	0.21	-	cyt	0	Cytoplasm (By similarity)		606016	1ZGK	624
Q6V595 UniProt NPD GO	KLHL6_MOUSE	Kelch-like protein 6	0.21	-	cyt	0					610
Q6R645 UniProt NPD GO	KR151_CAPHI	Keratin-associated protein 15-1 (Keratin-associated protein 15.1)	0.21	-	nuc	0					136
P43628 UniProt NPD GO	KI2L3_HUMAN	Killer cell immunoglobulin-like receptor 2DL3 precursor (MHC class I NK cell receptor) (Natural kill ...	0.21	-	exc	1	Membrane; single-pass type I membrane protein	integral to plasma membrane [TAS]	604938	1B6U	341
Q14952 UniProt NPD GO	KI2S3_HUMAN	Killer cell immunoglobulin-like receptor 2DS3 precursor (MHC class I NK cell receptor) (Natural kill ...	0.21	-	end	1	Membrane; single-pass type I membrane protein	integral to plasma membrane [TAS]	604954		304
P83555 UniProt NPD GO	KI3L1_MOUSE	Killer cell immunoglobulin-like receptor 3DL1 precursor	0.21	-	end	1	Membrane; single-pass type I membrane protein				432
P32733 UniProt NPD GO	ID5A_PROJU	Kunitz-type trypsin inhibitor alpha chain	0.21	-	nuc	0					137
Q8C172 UniProt NPD GO	LASS6_MOUSE	LAG1 longevity assurance homolog 6	0.21	-	end	5 *	Nucleus; nuclear membrane; multi-pass membrane protein (Potential). Endoplasmic reticulum; endoplasm ...			1X2M	384
Q8IVB5 UniProt NPD GO	LIX1L_HUMAN	LIX1-like protein	0.21	-	nuc	0					337
Q9QX69 UniProt NPD GO	LANC1_RAT	LanC-like protein 1 (40 kDa erythrocyte membrane protein) (p40)	0.21	-	cyt	0	Cytoplasm (By similarity). Membrane; peripheral membrane protein (By similarity)				399
P84466 UniProt NPD GO	ERG7_BOVIN	Lanosterol synthase (EC 5.4.99.7) (Oxidosqualene--lanosterol cyclase) (2,3-epoxysqualene--lanosterol ...	0.21	-	nuc	0					732
O97831 UniProt NPD GO	LPHN1_BOVIN	Latrophilin-1 precursor (Calcium-independent alpha-latrotoxin receptor 1)	0.21	-	end	8 *	Membrane; multi-pass membrane protein				1472
Q9AVB0 UniProt NPD GO	LECB_PHYAM	Lectin-B precursor (PL-B)	0.21	-	exc	1 *					361
Q95189 UniProt NPD GO	LEP_GORGO	Leptin (Obesity factor)	0.21	-	nuc	0	Secreted protein (Probable)				146
O02750 UniProt NPD GO	LEP_PANTR	Leptin (Obesity factor)	0.21	-	nuc	0	Secreted protein (Probable)				146
P36619 UniProt NPD GO	PMD1_SCHPO	Leptomycin B resistance protein pmd1	0.21	-	end	10	Membrane; multi-pass membrane protein (Probable)				1362
Q8BLY3 UniProt NPD GO	LRFN3_MOUSE	Leucine-rich repeat and fibronectin type-III domain-containing protein 3 precursor	0.21	-	end	1	Membrane; single-pass type I membrane protein (Potential)				626
Q9H756 UniProt NPD GO	LRC19_HUMAN	Leucine-rich repeat-containing protein 19 precursor	0.21	-	end	1	Membrane; single-pass type I membrane protein (Potential)				370
Q8N386 UniProt NPD GO	LRC25_HUMAN	Leucine-rich repeat-containing protein 25 precursor (Monocyte and plasmacytoid-activated protein)	0.21	-	exc	1	Membrane; single-pass type I membrane protein (Potential)		607518		305
Q9UIQ6 UniProt NPD GO	LCAP_HUMAN	Leucyl-cystinyl aminopeptidase (EC 3.4.11.3) (Cystinyl aminopeptidase) (Oxytocinase) (OTase) (Insuli ...	0.21	-	nuc	1	Cell membrane; single-pass type II membrane protein. Processed form: Secreted protein. During pregna ...	integral to plasma membrane [TAS] intracellular [IDA] plasma membrane [TAS]	151300		1025
Q8BMJ2 UniProt NPD GO	SYLC_MOUSE	Leucyl-tRNA synthetase, cytoplasmic (EC 6.1.1.4) (Leucine--tRNA ligase) (LeuRS)	0.21	-	cyt	0	Cytoplasm (By similarity)				1178

You are viewing entries 49651 to 49700 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.