SBC logo 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):


( 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:

Only show proteins where the PSORT II predicted location
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)    
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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
P34943
UniProt
NPD  GO		 NDUA9_BOVIN NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial precursor (EC 1.6.5.3) ( ... 0.07 - mit 0 Mitochondrion; mitochondrial matrix 380
Q8HXG5
UniProt
NPD  GO		 NDUBB_BOVIN NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial precursor (EC 1.6.5.3) ( ... 0.07 - nuc 1 Mitochondrion; mitochondrial inner membrane (Potential) 154
Q9D6J5
UniProt
NPD  GO		 NDUB8_MOUSE NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial precursor (EC 1.6.5.3) (E ... 0.07 - nuc 1 Mitochondrion; mitochondrial inner membrane; matrix side (By similarity) mitochondrial inner membrane [IDA]
mitochondrion [IDA]		 186
Q6Y0Z3
UniProt
NPD  GO		 XYL1_CANPA NADH-dependent D-xylose reductase (EC 1.1.1.175) (XR) 0.07 - cyt 0 324
O75380
UniProt
NPD  GO		 NUMM_HUMAN NADH-ubiquinone oxidoreductase 13 kDa-A subunit, mitochondrial precursor (EC 1.6.5.3) (EC 1.6.99.3) ... 0.07 - cyt 0 Mitochondrion; mitochondrial inner membrane; matrix side 603848 124
O75489
UniProt
NPD  GO		 NUGM_HUMAN NADH-ubiquinone oxidoreductase 30 kDa subunit, mitochondrial precursor (EC 1.6.5.3) (EC 1.6.99.3) (C ... 0.07 - mit 0 Mitochondrion; mitochondrial inner membrane 603846 264
Q37720
UniProt
NPD  GO		 NUCM_PYLLI NADH-ubiquinone oxidoreductase 49 kDa subunit (EC 1.6.5.3) (EC 1.6.99.3) (NADH dehydrogenase subunit ... 0.07 - cyt 0 Mitochondrion 398
O21270
UniProt
NPD  GO		 NUCM_RECAM NADH-ubiquinone oxidoreductase 49 kDa subunit (EC 1.6.5.3) (EC 1.6.99.3) (NADH dehydrogenase subunit ... 0.07 - cyt 0 Mitochondrion 396
Q43644
UniProt
NPD  GO		 NUAM_SOLTU NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial precursor (EC 1.6.5.3) (EC 1.6.99.3) (C ... 0.07 - mit 0 Mitochondrion; mitochondrial inner membrane (By similarity). Matrix and cytoplasmic side of the mito ... 738
P92558
UniProt
NPD  GO		 NU1M_ARATH NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1) 0.07 - end 8 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 325
O78701
UniProt
NPD  GO		 NU1M_BRAVA NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1) 0.07 - end 8 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 318
O78703
UniProt
NPD  GO		 NU1M_MONDO NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1) 0.07 - end 8 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 318
P03888
UniProt
NPD  GO		 NU1M_MOUSE NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1) 0.07 - end 7 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 318
Q01300
UniProt
NPD  GO		 NU1M_PETHY NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1) 0.07 - end 6 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 325
Q01148
UniProt
NPD  GO		 NU1M_WHEAT NADH-ubiquinone oxidoreductase chain 1 (EC 1.6.5.3) (NADH dehydrogenase subunit 1) 0.07 - end 7 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 325
P33503
UniProt
NPD  GO		 NU2M_ANOQU NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) 0.07 - end 9 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 341
P03896
UniProt
NPD  GO		 NU2M_DROME NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) 0.07 - end 9 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 341
Q95704
UniProt
NPD  GO		 NU2M_HYLLA NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) 0.07 - end 9 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 347
P48175
UniProt
NPD  GO		 NU2M_ONCMY NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) 0.07 - end 9 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 349
P12771
UniProt
NPD  GO		 NU2M_PARLI NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) 0.07 - end 11 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 352
Q33636
UniProt
NPD  GO		 NU2M_ANOAL NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) (Fragment) 0.07 - end 4 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 170
P29867
UniProt
NPD  GO		 NU2M_DROMA NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) (Fragment) 0.07 - end 6 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 274
P29868
UniProt
NPD  GO		 NU2M_DROSE NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) (Fragment) 0.07 - end 6 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 274
P29869
UniProt
NPD  GO		 NU2M_DROSI NADH-ubiquinone oxidoreductase chain 2 (EC 1.6.5.3) (NADH dehydrogenase subunit 2) (Fragment) 0.07 - end 6 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein 274
P34851
UniProt
NPD  GO		 NU3M_APILI NADH-ubiquinone oxidoreductase chain 3 (EC 1.6.5.3) (NADH dehydrogenase subunit 3) 0.07 - end 3 * 117
O79553
UniProt
NPD  GO		 NU3M_DINSE NADH-ubiquinone oxidoreductase chain 3 (EC 1.6.5.3) (NADH dehydrogenase subunit 3) 0.07 - end 3 * 114
P20686
UniProt
NPD  GO		 NU3M_ONCGO NADH-ubiquinone oxidoreductase chain 3 (EC 1.6.5.3) (NADH dehydrogenase subunit 3) 0.07 - end 3 * 116
O79102
UniProt
NPD  GO		 NU3M_STRCA NADH-ubiquinone oxidoreductase chain 3 (EC 1.6.5.3) (NADH dehydrogenase subunit 3) 0.07 - end 3 * 116
Q34949
UniProt
NPD  GO		 NU4M_LUMTE NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) 0.07 - end 10 * 452
Q36834
UniProt
NPD  GO		 NU4M_TRIRU NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) 0.07 - end 14 * 494
P92623
UniProt
NPD  GO		 NU4M_AGKAC NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
O03726
UniProt
NPD  GO		 NU4M_AGKHA NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
O03702
UniProt
NPD  GO		 NU4M_CROAD NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
O03704
UniProt
NPD  GO		 NU4M_CROLE NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
O03780
UniProt
NPD  GO		 NU4M_TRIAB NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
O03792
UniProt
NPD  GO		 NU4M_TRICN NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - exc 6 * 231
P92793
UniProt
NPD  GO		 NU4M_TRIEL NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
P92759
UniProt
NPD  GO		 NU4M_TRIST NADH-ubiquinone oxidoreductase chain 4 (EC 1.6.5.3) (NADH dehydrogenase subunit 4) (Fragment) 0.07 - end 6 * 231
Q4JQH9
UniProt
NPD  GO		 NU4LM_TETNG NADH-ubiquinone oxidoreductase chain 4L (EC 1.6.5.3) (NADH dehydrogenase subunit 4L) 0.07 - end 3 * 98
P33510
UniProt
NPD  GO		 NU5M_ANOQU NADH-ubiquinone oxidoreductase chain 5 (EC 1.6.5.3) (NADH dehydrogenase subunit 5) 0.07 - end 16 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 576
Q37710
UniProt
NPD  GO		 NU5M_ARTSF NADH-ubiquinone oxidoreductase chain 5 (EC 1.6.5.3) (NADH dehydrogenase subunit 5) 0.07 - end 14 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 541
P34195
UniProt
NPD  GO		 NU5M_CROLA NADH-ubiquinone oxidoreductase chain 5 (EC 1.6.5.3) (NADH dehydrogenase subunit 5) 0.07 - end 16 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 612
P15584
UniProt
NPD  GO		 NU5M_PARTE NADH-ubiquinone oxidoreductase chain 5 (EC 1.6.5.3) (NADH dehydrogenase subunit 5) 0.07 - end 16 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 570
Q35832
UniProt
NPD  GO		 NU5M_STRFN NADH-ubiquinone oxidoreductase chain 5 (EC 1.6.5.3) (NADH dehydrogenase subunit 5) (Fragment) 0.07 - end 3 * Mitochondrion; mitochondrial inner membrane; multi-pass membrane protein (Probable) 130
P33513
UniProt
NPD  GO		 NU6M_ANOQU NADH-ubiquinone oxidoreductase chain 6 (EC 1.6.5.3) (NADH dehydrogenase subunit 6) 0.07 - end 5 * 174
P07709
UniProt
NPD  GO		 NU6M_DROYA NADH-ubiquinone oxidoreductase chain 6 (EC 1.6.5.3) (NADH dehydrogenase subunit 6) 0.07 - end 4 * 174
Q43272
UniProt
NPD  GO		 GAPN_MAIZE NADP-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.9) (Non-phosphorylating glyceralde ... 0.07 - cyt 0 Cytoplasm 498
P36444
UniProt
NPD  GO		 MAOC_FLAPR NADP-dependent malic enzyme, chloroplast precursor (EC 1.1.1.40) (NADP-ME) 0.07 - nuc 0 Plastid; chloroplast 647
P22178
UniProt
NPD  GO		 MAOC_FLATR NADP-dependent malic enzyme, chloroplast precursor (EC 1.1.1.40) (NADP-ME) 0.07 - nuc 0 Plastid; chloroplast 648
P41816
UniProt
NPD  GO		 OYE3_YEAST NADPH dehydrogenase 3 (EC 1.6.99.1) (Old yellow enzyme 3) 0.07 - cyt 0 399

You are viewing entries 70501 to 70550 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.