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
Q6ENU8 UniProt NPD GO	PSBF_SACOF	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q7HIU1 UniProt NPD GO	PSBF_SAGLA	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q6EYP8 UniProt NPD GO	PSBF_SARHE	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q7J1A3 UniProt NPD GO	PSBF_SAUCE	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q7HIT9 UniProt NPD GO	PSBF_SCHCH	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q7HIT7 UniProt NPD GO	PSBF_SCIVE	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
P60127 UniProt NPD GO	PSBF_SECCE	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				38
Q67HD3 UniProt NPD GO	PSBF_SISMO	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q2MIH1 UniProt NPD GO	PSBF_SOLBU	Cytochrome b559 beta subunit (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q2VEG2 UniProt NPD GO	PSBF_SOLTU	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q2PMR8 UniProt NPD GO	PSBF_SOYBN	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q7HIT5 UniProt NPD GO	PSBF_SPAWA	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
P60128 UniProt NPD GO	PSBF_SPIOL	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein				38
Q71L52 UniProt NPD GO	PSBF_STAER	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q6EYP2 UniProt NPD GO	PSBF_STEPS	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q6EYN1 UniProt NPD GO	PSBF_TAXBR	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q6EYM7 UniProt NPD GO	PSBF_THUPL	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
P60124 UniProt NPD GO	PSBF_TOBAC	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				38
Q7J1A2 UniProt NPD GO	PSBF_TROAR	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q67HJ7 UniProt NPD GO	PSBF_TYPAN	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
P60125 UniProt NPD GO	PSBF_WHEAT	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				38
Q67H85 UniProt NPD GO	PSBF_YUCGL	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q7IW43 UniProt NPD GO	PSBF_ZAMFU	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q32RJ6 UniProt NPD GO	PSBF_ZYGCR	Cytochrome b559 subunit beta (PSII reaction center subunit VI)	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				39
Q69S39 UniProt NPD GO	UCRIA_ORYSA	Cytochrome b6-f complex iron-sulfur subunit, chloroplast precursor (EC 1.10.99.1) (Rieske iron-sulfu ...	0.01	-	mit	1	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein. The transmembran ...				225
Q7X9A6 UniProt NPD GO	UCRIA_WHEAT	Cytochrome b6-f complex iron-sulfur subunit, chloroplast precursor (EC 1.10.99.1) (Rieske iron-sulfu ...	0.01	-	mit	1	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein. The transmembran ...				222
Q84TU6 UniProt NPD GO	PETD_EUGGR	Cytochrome b6-f complex subunit 4, chloroplast precursor (17 kDa polypeptide) (Fragment)	0.01	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein	cytochrome b6f complex [IDA]			173
Q5QA79 UniProt NPD GO	PETG_ACOGR	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q85FK3 UniProt NPD GO	PETG_ADICA	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				38
Q70XY7 UniProt NPD GO	PETG_AMBTC	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q85AH1 UniProt NPD GO	PETG_ANTFO	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	cyt	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P56775 UniProt NPD GO	PETG_ARATH	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q7FNS7 UniProt NPD GO	PETG_ATRBE	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69453 UniProt NPD GO	PETG_BETTR	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69454 UniProt NPD GO	PETG_BETVU	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69455 UniProt NPD GO	PETG_BETWE	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q7HKX6 UniProt NPD GO	PETG_CALFE	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q8M9Y4 UniProt NPD GO	PETG_CHAGL	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	cyt	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q85FY3 UniProt NPD GO	PETG_CYAME	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				36
O78505 UniProt NPD GO	PETG_GUITH	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69456 UniProt NPD GO	PETG_LOTJA	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69457 UniProt NPD GO	PETG_MAIZE	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P12120 UniProt NPD GO	PETG_MARPO	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	cyt	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q9MUN3 UniProt NPD GO	PETG_MESVI	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q6EW34 UniProt NPD GO	PETG_NYMAL	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69458 UniProt NPD GO	PETG_OENHO	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q6ENF4 UniProt NPD GO	PETG_ORYNI	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P69459 UniProt NPD GO	PETG_ORYSA	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q68RY7 UniProt NPD GO	PETG_PANGI	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q6YXM1 UniProt NPD GO	PETG_PHYPA	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.01	-	cyt	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37

You are viewing entries 87751 to 87800 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.