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
Q3BAK6 UniProt NPD GO	PETD_PHAAO	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				163
Q6YXR5 UniProt NPD GO	PETD_PHYPA	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
O47044 UniProt NPD GO	PETD_PICAB	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				178
Q85X03 UniProt NPD GO	PETD_PINKO	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				189
P52770 UniProt NPD GO	PETD_PINTH	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				180
P51340 UniProt NPD GO	PETD_PORPU	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q3ZJ11 UniProt NPD GO	PETD_PSEAK	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q8WHZ2 UniProt NPD GO	PETD_PSINU	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q6L371 UniProt NPD GO	PETD_SACHY	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q6ENT3 UniProt NPD GO	PETD_SACOF	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
P19586 UniProt NPD GO	PETD_SCEOB	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q2VEE9 UniProt NPD GO	PETD_SOLTU	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q71KP3 UniProt NPD GO	PETD_SPIMX	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
P00166 UniProt NPD GO	PETD_SPIOL	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q32RU6 UniProt NPD GO	PETD_STAPU	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
P06249 UniProt NPD GO	PETD_TOBAC	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
P12119 UniProt NPD GO	PETD_WHEAT	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
Q32RG3 UniProt NPD GO	PETD_ZYGCR	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide)	0.00	-	end	3 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				160
P12361 UniProt NPD GO	PETD_HORVU	Cytochrome b6-f complex subunit 4 (17 kDa polypeptide) (Fragment)	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; multi-pass membrane protein (By similarity)				92
P46304 UniProt NPD GO	PETG_CHLEU	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q08362 UniProt NPD GO	PETG_CHLRE	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein			1Q90	37
P56305 UniProt NPD GO	PETG_CHLVU	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P30398 UniProt NPD GO	PETG_CUSRE	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; plastid membrane; single-pass membrane protein (Potential)				37
P14236 UniProt NPD GO	PETG_CYAPA	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; cyanelle; cyanelle thylakoid membrane; single-pass membrane proteins (By similarity)				37
P30396 UniProt NPD GO	PETG_EUGGR	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q6B8U9 UniProt NPD GO	PETG_GRATL	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q9TKY8 UniProt NPD GO	PETG_NEPOL	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
P49470 UniProt NPD GO	PETG_ODOSI	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
O96811 UniProt NPD GO	PETG_SKECO	Cytochrome b6-f complex subunit 5 (Cytochrome b6-f complex subunit V) (Cytochrome b6-f complex subun ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				37
Q85FK4 UniProt NPD GO	PETL_ADICA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q85AP7 UniProt NPD GO	PETL_ANTFO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P56776 UniProt NPD GO	PETL_ARATH	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q8M9Y3 UniProt NPD GO	PETL_CHAGL	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3S9 UniProt NPD GO	PETL_CHERU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P56306 UniProt NPD GO	PETL_CHLVU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4VZJ9 UniProt NPD GO	PETL_CUCSA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4G3B0 UniProt NPD GO	PETL_EMIHU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
O78468 UniProt NPD GO	PETL_GUITH	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3S0 UniProt NPD GO	PETL_HUMLU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P12179 UniProt NPD GO	PETL_MARPO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q9MUN4 UniProt NPD GO	PETL_MESVI	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q9TKY9 UniProt NPD GO	PETL_NEPOL	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P49524 UniProt NPD GO	PETL_ODOSI	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q68RY8 UniProt NPD GO	PETL_PANGI	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q6YXM0 UniProt NPD GO	PETL_PHYPA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3V4 UniProt NPD GO	PETL_PINAR	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
P69399 UniProt NPD GO	PETL_PINKO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
Q5K3V3 UniProt NPD GO	PETL_PINMU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
P69400 UniProt NPD GO	PETL_PINTH	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				33
O20272 UniProt NPD GO	PETL_POPDE	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.00	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31

You are viewing entries 93951 to 94000 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.