CropPAL

Subcellular Localization

min:

: max

Winner_takes_all: endoplasmic reticulum, nucleus

Predictor Summary:

nucleus 2
cytosol 2
mitochondrion 1
plastid 2

Predictors

GFP

MS/MS

Papers

nucleus: 21132161
endoplasmic reticulum: 27224218
nucleus: 27291164
endoplasmic reticulum: 28499913

msms PMID: 21132161 doi

B Cooper, KB Campbell, J Feng, WM Garrett, R Frederick

Soybean Genomics and Improvement Laboratory, USDA-ARS, Beltsville, MD 20705, USA. bret.cooper@ars.usda.gov

msms PMID: 28499913 doi

S Komatsu, X Wang, X Yin, Y Nanjo, H Ohyanagi, K Sakata

Department of Life Science and Informatics, Maebashi Institute of Technology, Maebashi 371-0816, Japan. Electronic address: ksakata@maebashi-it.ac.jp., Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba 305-8518, Japan., Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba 305-8518, Japan; Faculty of Life and Environmental Sciences, University of Tsukuba, Tsukuba 305-8572, Japan., Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba 305-8518, Japan; Faculty of Life and Environmental Sciences, University of Tsukuba, Tsukuba 305-8572, Japan. Electronic address: komatsu.setsuko.fu@u.tsukuba.ac.jp., King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Saudi Arabia.

msms PMID: 27291164 doi

X Yin, S Komatsu

Graduate School of Life and Environmental Sciences, University of Tsukuba , Tsukuba 305-8572, Japan., National Institute of Crop Science, National Agriculture and Food Research Organization , Tsukuba 305-8518, Japan.

msms PMID: 27224218 doi

X Wang, S Komatsu

PPI

Inferred distinct locusB in Crop

locusB	locations
KRH11760
KRH12930
KRH36762
KRH37905

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT4G25550.1	KRH11760	AT1G30460.1	18479511
AT4G25550.1	KRH36762	AT1G30460.1	18479511
AT4G25550.1	KRH12930	AT5G58040.1	18479511
AT4G25550.1	KRH37905	AT5G58040.1	18479511

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
KRH35335	Soybean	cytosol	36.0	98.63
PGSC0003DMT400084196	Potato	peroxisome	31.5	94.03
Solyc03g025880.2.1	Tomato	nucleus	91.5	91.5
PGSC0003DMT400037077	Potato	cytosol	28.0	90.32
VIT_16s0050g00030.t01	Wine grape	cytosol, plastid	90.0	90.0
Solyc01g009630.2.1	Tomato	nucleus	90.0	90.0
Solyc01g009620.2.1	Tomato	nucleus	90.0	90.0
PGSC0003DMT400037076	Potato	cytosol, plastid	51.0	89.47
CDX92717	Canola	cytosol	89.0	89.0
AT4G25550.1	Thale cress	cytosol	89.0	89.0
Bra019155.1-P	Field mustard	cytosol	88.5	88.5
CDY52363	Canola	cytosol	88.5	88.5
CDY50198	Canola	cytosol	88.5	88.5
CDY54086	Canola	cytosol	88.5	88.5
CDX89414	Canola	cytosol	87.5	87.5
Bra013899.1-P	Field mustard	cytosol	87.5	87.5
HORVU2Hr1G124110.1	Barley	cytosol	87.0	85.71
TraesCS2A01G580600.1	Wheat	nucleus	87.0	85.71
TraesCS2B01G608100.1	Wheat	cytosol	87.0	85.71
TraesCS2D01G592500.2	Wheat	cytosol	87.0	85.71
TraesCS1A01G355100.1	Wheat	cytosol	86.5	85.22
TraesCS1B01G366600.1	Wheat	cytosol	86.5	85.22
TraesCS1D01G355400.1	Wheat	cytosol	86.5	85.22
HORVU1Hr1G081030.2	Barley	cytosol	40.5	76.42
CDX94441	Canola	cytosol	86.5	73.31
GSMUA_AchrUn_...	Banana	plastid	26.0	58.43
HORVU0Hr1G001450.1	Barley	plastid	47.5	52.49
Bra010457.1-P	Field mustard	cytosol	88.5	45.04
KRH37445	Soybean	nucleus	49.5	44.0
KRH12461	Soybean	plastid	45.0	30.41

Protein Annotations

EntrezGene:100306068	MapMan:16.2.1.4.1	Gene3D:3.90.79.10	EMBL:ACUP02012689	EMBL:BT089985	UniProt:C6SXT8
InterPro:Cleav_polyA_spec_factor_su5	EnsemblPlantsGene:GLYMA_20G157800	GO:GO:0003674	GO:GO:0003676	GO:GO:0003723	GO:GO:0003729
GO:GO:0003824	GO:GO:0005488	GO:GO:0005575	GO:GO:0005622	GO:GO:0005623	GO:GO:0005634
GO:GO:0005654	GO:GO:0005849	GO:GO:0006139	GO:GO:0006378	GO:GO:0008150	GO:GO:0008152
GO:GO:0009987	GO:GO:0016787	InterPro:IPR000086	EnsemblPlants:KRG91493	ProteinID:KRG91493	ProteinID:KRG91493.1
InterPro:NUDIX_hydrolase-like_dom_sf	InterPro:NUDIX_hydrolase_dom	PFAM:PF13869	PIRSF:PIRSF017888	PFscan:PS51462	PANTHER:PTHR13047
SUPFAM:SSF55811	UniParc:UPI0001B154AA	:	:	:	:

Description

hypothetical protein

Coordinates

chr20:+:39655015..39658612

Molecular Weight (calculated)

22968.2 Da

IEP (calculated)

9.667

GRAVY (calculated)

-0.331

Length

200 amino acids

Sequence
(BLAST)

001: MVSSQVVNTY PLSSYTFGTK EPKMEKDTSV ADRLARMKVN YMKEGMRTSV EGILLVQEHN HPHILLLQIG NTFCKLPGGR LKPGENENEG LKRKLTSKLG
101: ANSPALVPDW QIGECVAIWW RPNFETIMYP YCPPHITKPK ECKKLFLVHL SEREYFAVPK NLKLLAVPLF ELYDNVQRYG PVISTIPQQL SRFQFKMITN

Best Arabidopsis Sequence Match ( AT4G25550.1 )
(BLAST)

001: MAMSQVVNTY PLSNYSFGTK EPKLEKDTSV ADRLARMKIN YMKEGMRTSV EGILLVQEHN HPHILLLQIG NTFCKLPGGR LKPGENEADG LKRKLTSKLG
101: GNSAALVPDW TVGECVATWW RPNFETMMYP YCPPHITKPK ECKRLYIVHL SEKEYFAVPK NLKLLAVPLF ELYDNVQRYG PVISTIPQQL SRFHFNMISS

Arabidopsis Description

CFIS2Pre-mRNA cleavage factor Im 25 kDa subunit 2 [Source:UniProtKB/Swiss-Prot;Acc:Q8GXS3]
SUBAcon: [cytosol]

Hydropathy Plot

About CropPAL

The Protein Annotated Locations Database (CropPAL) houses large scale proteomic and GFP localization data from published experimental studies in Soybean (Glycine max), Maize (Zea mays), Wheat (Triticum aestivum), Barley (Hordeum vulgare), Rice (Oryza sativa), Field mustard (Brassica rapa), Canola (Brassica napus), Sorghum (Sorghum bicolor), Potato (Solanum tuberosum), Tomato (Solanum lycopersicum), Banana (Musa acuminata) and Wine grape (Vitis vinifera) as well as precomputed predictions for protein subcellular localizations using protein sequences.