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
P69460 UniProt NPD GO	PETG_POPDE	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
Q6L382 UniProt NPD GO	PETG_SACHY	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
Q6ENU5 UniProt NPD GO	PETG_SACOF	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
P69461 UniProt NPD GO	PETG_SPIOL	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
P69462 UniProt NPD GO	PETG_TOBAC	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
P69463 UniProt NPD GO	PETG_WHEAT	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
Q5K3V1 UniProt NPD GO	PETL_ABIHO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3T3 UniProt NPD GO	PETL_AMACA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3T2 UniProt NPD GO	PETL_AMACR	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q70XY8 UniProt NPD GO	PETL_AMBTC	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P69402 UniProt NPD GO	PETL_ATRBE	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P46612 UniProt NPD GO	PETL_BETVU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3U6 UniProt NPD GO	PETL_CALFL	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3S8 UniProt NPD GO	PETL_CHEBH	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P50369 UniProt NPD GO	PETL_CHLRE	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)			1Q90	43
Q85FP9 UniProt NPD GO	PETL_CYAME	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				29
P48102 UniProt NPD GO	PETL_CYAPA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	1 *	Plastid; cyanelle; cyanelle thylakoid membrane; single-pass membrane protein (By similarity)				28
Q49KY1 UniProt NPD GO	PETL_EUCGG	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3R9 UniProt NPD GO	PETL_FICCA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3S7 UniProt NPD GO	PETL_HAMVI	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5SD33 UniProt NPD GO	PETL_HUPLU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	0	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (Potential)				31
Q332W0 UniProt NPD GO	PETL_LACSA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q9BBR4 UniProt NPD GO	PETL_LOTJA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q2MI82 UniProt NPD GO	PETL_LYCES	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3U4 UniProt NPD GO	PETL_MAGGA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3U3 UniProt NPD GO	PETL_MAGST	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q2UVE0 UniProt NPD GO	PETL_NICGU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q3C1L1 UniProt NPD GO	PETL_NICSY	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q33C14 UniProt NPD GO	PETL_NICTO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q6EW35 UniProt NPD GO	PETL_NYMAL	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q9MTK4 UniProt NPD GO	PETL_OENHO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q6ENF5 UniProt NPD GO	PETL_ORYNI	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P12180 UniProt NPD GO	PETL_ORYSA	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q3BAM2 UniProt NPD GO	PETL_PHAAO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	mit	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3T5 UniProt NPD GO	PETL_PHYAM	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3T8 UniProt NPD GO	PETL_POLBS	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q5K3S1 UniProt NPD GO	PETL_POTAN	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4QYT2 UniProt NPD GO	PETL_SACBR	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4QYS8 UniProt NPD GO	PETL_SACED	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q6ENU6 UniProt NPD GO	PETL_SACOF	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4QYT4 UniProt NPD GO	PETL_SACRO	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4QYT1 UniProt NPD GO	PETL_SACSI	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q4QYS6 UniProt NPD GO	PETL_SACSP	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q2MIG9 UniProt NPD GO	PETL_SOLBU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q2VEG0 UniProt NPD GO	PETL_SOLTU	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q9M3L0 UniProt NPD GO	PETL_SPIOL	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P69401 UniProt NPD GO	PETL_TOBAC	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P58247 UniProt NPD GO	PETL_WHEAT	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
Q32RH7 UniProt NPD GO	PETL_ZYGCR	Cytochrome b6-f complex subunit 6 (Cytochrome b6-f complex subunit VI) (Cytochrome b6-f complex subu ...	0.01	-	nuc	1 *	Plastid; chloroplast; chloroplast thylakoid membrane; single-pass membrane protein (By similarity)				31
P48366 UniProt NPD GO	PETM_CYAPA	Cytochrome b6-f complex subunit 7 (Cytochrome b6-f complex subunit VII) (Cytochrome b6-f complex sub ...	0.01	-	nuc	1 *	Plastid; cyanelle; cyanelle thylakoid membrane; single-pass membrane protein (By similarity)				33

You are viewing entries 87801 to 87850 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.