Factsheet for VIT_07s0104g00560.t01

Subcellular Localization

min:

: max

Winner_takes_all: cytosol

Predictor Summary:

extracellular 3
endoplasmic reticulum 3
vacuole 3
plasma membrane 3
golgi 3
nucleus 2
cytosol 3

Predictors

GFP

MS/MS

Papers

Winner Takes All:	cytosol
Any Predictor:	cytosol, nucleus, secretory
BaCelLo:	secretory
EpiLoc:	nucleus
MultiLoc:	cytosol
Plant-mPloc:	nucleus
Predotar:	secretory
PProwler:	secretory
WoLF PSORT:	cytosol
YLoc:	cytosol

PPI

Inferred distinct locusB in Crop

locusB	locations
VIT_18s0072g00710.t01	cytosol, cytosol, nucleus, nucleus

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT1G03330.1	VIT_18s0072g00710.t01	AT1G21190.1	23221597
AT1G03330.1	VIT_18s0072g00710.t01	AT1G21190.1	23221597
AT1G03330.1	VIT_18s0072g00710.t01	AT1G76860.1	23221597
AT1G03330.1	VIT_18s0072g00710.t01	AT1G76860.1	23221597

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
PGSC0003DMT400009801	Potato	cytosol	91.75	95.7
Solyc09g072970.2.1	Tomato	cytosol	91.75	95.7
Solyc06g084350.2.1	Tomato	cytosol	90.72	94.62
KRG95475	Soybean	nucleus	89.69	93.55
KRH67157	Soybean	cytosol	89.69	93.55
PGSC0003DMT400051614	Potato	cytosol	80.41	92.86
AT1G03330.1	Thale cress	cytosol	88.66	92.47
Bra030529.1-P	Field mustard	cytosol	87.63	91.4
KXG30280	Sorghum	cytosol	87.63	91.4
GSMUA_Achr8P06050_001	Banana	extracellular	90.72	83.81
CDX89900	Canola	endoplasmic reticulum, extracellular	89.69	82.08
Zm00001d024593_P001	Maize	cytosol	57.73	70.0
CDX86679	Canola	cytosol	87.63	68.55
CDY15459	Canola	cytosol	87.63	65.89
GSMUA_Achr11P...	Banana	cytosol	86.6	55.26
Zm00001d024591_P001	Maize	cytosol, mitochondrion, nucleus	39.18	26.95

Protein Annotations

MapMan:16.4.3.2	Gene3D:2.30.30.100	ProteinID:CCB56813	ProteinID:CCB56813.1	UniProt:F6HQ57	EMBL:FN596005
GO:GO:0000398	GO:GO:0000932	GO:GO:0003674	GO:GO:0003676	GO:GO:0003723	GO:GO:0005488
GO:GO:0005575	GO:GO:0005622	GO:GO:0005623	GO:GO:0005634	GO:GO:0005681	GO:GO:0005688
GO:GO:0005737	GO:GO:0006139	GO:GO:0006397	GO:GO:0008150	GO:GO:0008152	GO:GO:0008380
GO:GO:0009987	GO:GO:0030529	GO:GO:0046540	GO:GO:0071011	GO:GO:0071013	GO:GO:1990726
InterPro:LSM_dom_euk/arc	InterPro:LSM_dom_sf	PFAM:PF01423	PIRSF:PIRSF016394	PANTHER:PTHR13829	SMART:SM00651
SUPFAM:SSF50182	TIGR:TC62578	InterPro:U6_snRNA_Lsm2	UniParc:UPI00015CB0A0	ArrayExpress:VIT_07s0104g00560	EnsemblPlantsGene:VIT_07s0104g00560
EnsemblPlants:VIT_07s0104g00560.t01	:	:	:	:	:

Description

Sm-like protein LSM2 [Source:UniProtKB/TrEMBL;Acc:F6HQ57]

Coordinates

chr7:-:1775215..1780238

Molecular Weight (calculated)

11161.5 Da

IEP (calculated)

7.607

GRAVY (calculated)

-0.218

Length

97 amino acids

Sequence
(BLAST)

1: MGLVQLFFSY FKDLVGREVT VELKNDLAIR GTLHSVDQYL NIKLENTRVV DQDKYPHMLS VRNCFIRGSV VRYVQLPPEG VDIELLHDAT RREARGG

Best Arabidopsis Sequence Match ( AT1G03330.1 )
(BLAST)

1: MLFFSYFKDL VGQEVTVELK NDLAIRGTLH SVDQYLNIKL ENTRVVDQDK YPHMLSVRNC FIRGSVVRYV QLPKDGVDVD LLHDAARREA RGG

Arabidopsis Description

LSM2Sm-like protein LSM2 [Source:UniProtKB/TrEMBL;Acc:A0A178W785]
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.