CropPAL

Subcellular Localization

min:

: max

Winner_takes_all: nucleus

Predictor Summary:

nucleus 2
cytosol 3
mitochondrion 2
plastid 1

Predictors

GFP

MS/MS

Papers

nucleus: 21132161
endoplasmic reticulum: 23041469
nucleus: 27291164
mitochondrion: 27780359
endoplasmic reticulum: 28499913
mitochondrion: 28499913
nucleus: 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: 27780359 doi

G Mustafa, S Komatsu

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

msms PMID: 23041469 doi

S Komatsu, R Kuji, Y Nanjo, S Hiraga, K Furukawa

National Institute of Crop Science, Tsukuba 305-8518, Japan. skomatsu@affrc.go.jp

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.

PPI

Inferred distinct locusB in Crop

locusB	locations
KRH22291
KRH27037

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT3G24830.1	KRH22291	AT2G42580.1	19000166
AT3G24830.1	KRH27037	AT2G42580.1	19000166

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
KRH07489	Soybean	nucleus	97.09	97.09
KRH11781	Soybean	nucleus	96.6	96.6
KRH46742	Soybean	nucleus	94.17	94.17
KRH46743	Soybean	cytosol	92.23	92.23
AT5G48760.1	Thale cress	cytosol	90.29	90.29
CDY39786	Canola	cytosol	90.29	90.29
Bra036669.1-P	Field mustard	cytosol	90.29	90.29
CDY03292	Canola	cytosol	90.29	90.29
AT4G13170.1	Thale cress	cytosol	89.32	89.32
VIT_07s0005g06490.t01	Wine grape	cytosol	89.32	89.32
CDY00046	Canola	cytosol	88.83	88.83
CDY33947	Canola	cytosol	88.83	88.83
CDY05663	Canola	cytosol	88.83	88.83
CDX86281	Canola	cytosol	88.83	88.83
CDX85362	Canola	cytosol	88.83	88.83
Bra036161.1-P	Field mustard	cytosol	88.83	88.83
AT3G07110.2	Thale cress	cytosol	88.83	88.41
CDX77383	Canola	cytosol	88.35	88.35
CDY52083	Canola	cytosol	88.35	88.35
Bra020681.1-P	Field mustard	cytosol	88.35	88.35
VIT_05s0029g00020.t01	Wine grape	cytosol, mitochondrion, nucleus, plastid	88.35	88.35
CDX93039	Canola	cytosol	87.86	87.86
CDY15113	Canola	cytosol	87.86	87.86
Bra015088.1-P	Field mustard	cytosol	87.86	87.86
Bra013239.1-P	Field mustard	cytosol	87.86	87.86
AT3G24830.1	Thale cress	cytosol	87.38	87.38
VIT_15s0021g00760.t01	Wine grape	mitochondrion	48.54	86.96
PGSC0003DMT400019917	Potato	mitochondrion	85.44	85.44
PGSC0003DMT400076290	Potato	cytosol, plastid	85.44	85.44
Solyc12g098330.1.1	Tomato	nucleus, unclear	85.44	85.44
PGSC0003DMT400040760	Potato	mitochondrion, plastid	84.95	84.95
Solyc05g053670.2.1	Tomato	nucleus	84.95	84.95
PGSC0003DMT400096774	Potato	mitochondrion, plastid	80.1	82.09
CDY19938	Canola	mitochondrion	45.15	81.58
Solyc09g091740.2.1	Tomato	nucleus	84.47	80.56
KRH25477	Soybean	nucleus	20.87	70.49

Protein Annotations

EntrezGene:100499978	MapMan:17.1.2.1.14	Gene3D:3.90.1180.10	EMBL:ACUP02005397	EMBL:BT090396	UniProt:C6SYZ8
EnsemblPlantsGene:GLYMA_09G024000	GO:GO:0003674	GO:GO:0003676	GO:GO:0003723	GO:GO:0003729	GO:GO:0003735
GO:GO:0005198	GO:GO:0005488	GO:GO:0005575	GO:GO:0005622	GO:GO:0005623	GO:GO:0005737
GO:GO:0005829	GO:GO:0005840	GO:GO:0006412	GO:GO:0008150	GO:GO:0008152	GO:GO:0009058
GO:GO:0009987	GO:GO:0015934	GO:GO:0019538	GO:GO:0022625	GO:GO:0030529	InterPro:IPR036899
EnsemblPlants:KRH36792	ProteinID:KRH36792	ProteinID:KRH36792.1	HAMAP:MF_01366	PFAM:PF00572	PIRSF:PIRSF002181
ScanProsite:PS00783	PANTHER:PTHR11545	PANTHER:PTHR11545:SF3	InterPro:Ribosomal_L13	InterPro:Ribosomal_L13_CS	InterPro:Ribosomal_L13_euk/arc
InterPro:Ribosomal_L13_sf	SUPFAM:SSF52161	TIGRFAMs:TIGR01077	UniParc:UPI0001B14E30	SEG:seg	:

Description

hypothetical protein

Coordinates

chr9:+:1942370..1944434

Molecular Weight (calculated)

23588.6 Da

IEP (calculated)

10.986

GRAVY (calculated)

-0.394

Length

206 amino acids

Sequence
(BLAST)

001: MVSGSGICAK RVVVDARHHM LGRLASIVAK ELLNGQKVVV VRCEEICISG GLVRQKMKYL RFLRKRMNTK PSHGPIHFRA PSKIFWRTVR GMIPHKTKRG
101: EAALARLKVY EGIPPPYDKT KRMVVPDALK VLRLQKGHKY CVLGRLSSEV GWSYYDTIRE LEKKRKEKAA VVYERKKQLN KLRVKAEKVA EEKLGSQLDV
201: LAPVKY

Best Arabidopsis Sequence Match ( AT5G48760.2 )
(BLAST)

001: MVSGSGICSK RVVVDARHHM LGRLASITAK ELLNGQKVVI VRCEEICLSG GLVRQKMKYM RFLRKRMNTK PSHGPIHFRA PSKIFWRTVR GMIPHKTKRG
101: AAALARLKVY EGVPTPYDKI KRMVIPDALK VLRLQAGHKY CLLGRLSSEV GWNHYDTIKE LETKRKERAH VVYERKKQLN KLRVKAEKVA EEKLGAQLDI
201: LAPVKY

Arabidopsis Description

RPL13AD60S ribosomal protein L13a-4 [Source:UniProtKB/Swiss-Prot;Acc:Q9FKC0]
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.