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
Q85FJ6 UniProt NPD GO	PSBT_ADICA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				34
Q6EYL9 UniProt NPD GO	PSBT_AGARO	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q67HV9 UniProt NPD GO	PSBT_ALLTE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q9GE34 UniProt NPD GO	PSBT_AMBTC	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q67I71 UniProt NPD GO	PSBT_ANACO	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q85BG5 UniProt NPD GO	PSBT_ANTFO	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				40
P61839 UniProt NPD GO	PSBT_ARATH	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q9GFA7 UniProt NPD GO	PSBT_ASACA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q67HV1 UniProt NPD GO	PSBT_ASPOF	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q8S8W1 UniProt NPD GO	PSBT_ATRBE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				34
Q71LC0 UniProt NPD GO	PSBT_BOWSE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q67IA1 UniProt NPD GO	PSBT_BUTUM	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q9GFA4 UniProt NPD GO	PSBT_CABCA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7YJV0 UniProt NPD GO	PSBT_CALFE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7J197 UniProt NPD GO	PSBT_CALFL	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q6EYK7 UniProt NPD GO	PSBT_CANWI	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q71LB6 UniProt NPD GO	PSBT_CEDDE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q9GF98 UniProt NPD GO	PSBT_CERDE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7J195 UniProt NPD GO	PSBT_CERJA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q8M9Z1 UniProt NPD GO	PSBT_CHAGL	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
P37256 UniProt NPD GO	PSBT_CHLRE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein				31
P56327 UniProt NPD GO	PSBT_CHLVU	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P59903 UniProt NPD GO	PSBT_COLOB	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q6EYJ9 UniProt NPD GO	PSBT_CORMA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q5IHC3 UniProt NPD GO	PSBT_CRYJA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q6EYJ5 UniProt NPD GO	PSBT_CUNLA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
O19927 UniProt NPD GO	PSBT_CYACA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				32
Q85FZ4 UniProt NPD GO	PSBT_CYAME	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				32
Q71LA7 UniProt NPD GO	PSBT_CYCRE	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7J193 UniProt NPD GO	PSBT_DIOBU	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q8HS40 UniProt NPD GO	PSBT_EPHSI	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P20176 UniProt NPD GO	PSBT_EUGGR	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q6EYJ1 UniProt NPD GO	PSBT_EUOAL	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q9GF87 UniProt NPD GO	PSBT_GINBI	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q9GF83 UniProt NPD GO	PSBT_GNEGN	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q6B8Y5 UniProt NPD GO	PSBT_GRATL	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
O78512 UniProt NPD GO	PSBT_GUITH	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				32
Q8HS36 UniProt NPD GO	PSBT_GUNCH	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q6EYH9 UniProt NPD GO	PSBT_HOUCO	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7HIW5 UniProt NPD GO	PSBT_HYDCA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7J191 UniProt NPD GO	PSBT_ILLPA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
P59904 UniProt NPD GO	PSBT_KLEBI	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				34
Q7J189 UniProt NPD GO	PSBT_LACFR	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q7HIW3 UniProt NPD GO	PSBT_LILSU	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q7J188 UniProt NPD GO	PSBT_LIRTU	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
P69670 UniProt NPD GO	PSBT_LOTJA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q5IHD9 UniProt NPD GO	PSBT_MAGAC	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q8HS29 UniProt NPD GO	PSBT_MAGST	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q5IHD7 UniProt NPD GO	PSBT_MAGTR	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				35
Q67HT9 UniProt NPD GO	PSBT_MAIRA	Photosystem II reaction center T protein (PSII-T)	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33

You are viewing entries 96801 to 96850 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.