Factsheet for PGSC0003DMT400021589

Subcellular Localization

min:

: max

Winner_takes_all: nucleus

Predictor Summary:

extracellular 1
endoplasmic reticulum 1
vacuole 1
plasma membrane 1
golgi 1
nucleus 4
cytosol 1
mitochondrion 1

Predictors

GFP

MS/MS

Papers

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

PPI

Inferred distinct locusB in Crop

locusB	locations
PGSC0003DMT400076269	cytosol, nucleus

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT2G43810.1	PGSC0003DMT400076269	AT5G48870.1	23221597
AT2G43810.1	PGSC0003DMT400076269	AT5G48870.1	23221597

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
VIT_05s0094g00940.t01	Wine grape	cytosol, nucleus, plastid	95.6	95.6
KRH40501	Soybean	nucleus	93.41	93.41
KRH00694	Soybean	cytosol	93.41	93.41
Solyc10g078450.1.1	Tomato	cytosol	42.86	88.64
AT2G43810.1	Thale cress	cytosol	87.91	87.91
CDX89036	Canola	cytosol, extracellular, nucleus	80.22	83.91
Bra003391.1-P	Field mustard	cytosol	83.52	83.52
CDX67814	Canola	cytosol	83.52	83.52
CDX98396	Canola	cytosol	83.52	83.52
Bra014525.1-P	Field mustard	cytosol	82.42	81.52
CDY45780	Canola	cytosol, extracellular, nucleus	82.42	81.52
Bra007478.1-P	Field mustard	cytosol	82.42	80.65
CDY05977	Canola	cytosol	82.42	80.65
Zm00001d025239_P001	Maize	nucleus	81.32	77.89
EES12036	Sorghum	plastid	82.42	77.32
GSMUA_Achr6P11930_001	Banana	cytosol	81.32	76.29
Os02t0510100-01	Rice	cytosol, nucleus, plastid	84.62	76.24
KXG30274	Sorghum	plastid	80.22	75.26
Os04t0388900-01	Rice	nucleus	80.22	75.26
TraesCS2A01G284300.1	Wheat	nucleus	80.22	73.74
TraesCS2B01G301300.1	Wheat	plastid	80.22	73.74
TraesCS2D01G283200.1	Wheat	plastid	80.22	73.74
GSMUA_Achr8P16430_001	Banana	plastid	79.12	55.81
HORVU2Hr1G070000.3	Barley	plastid	80.22	52.9
PGSC0003DMT400072262	Potato	cytosol	27.47	28.41

Protein Annotations

EntrezGene:102588530	MapMan:16.4.3.6	Gene3D:2.30.30.100	GO:GO:0000398	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:0005732	GO:GO:0006139	GO:GO:0006397	GO:GO:0008150	GO:GO:0008152
GO:GO:0008380	GO:GO:0009987	GO:GO:0030529	InterPro:LSM_dom_euk/arc	InterPro:LSM_dom_sf	InterPro:Lsm6/sSmF
UniProt:M1AFD3	PFAM:PF01423	EnsemblPlantsGene:PGSC0003DMG400008371	PGSC:PGSC0003DMG400008371	EnsemblPlants:PGSC0003DMT400021589	PIRSF:PIRSF006609
PANTHER:PTHR11021	SMART:SM00651	SUPFAM:SSF50182	UniParc:UPI000296252B	RefSeq:XP_006362264.1	:

Description

Small nuclear ribonucleoprotein f [Source:PGSC_GENE;Acc:PGSC0003DMG400008371]

Coordinates

chr10:-:59213520..59216957

Molecular Weight (calculated)

9838.8 Da

IEP (calculated)

9.452

GRAVY (calculated)

-0.380

Length

91 amino acids

Sequence
(BLAST)

1: MSGAGEKGST TTKTPADFLK SIRGRPVVVK LNSGVDYRGI LACLDGYMNI AMEQTEEYVN GQLKNKYGDA FIRGNNVLYI STSKRTLGEG A

Best Arabidopsis Sequence Match ( AT2G43810.1 )
(BLAST)

1: MSGVGEKASG TTKTPADFLK SIRGKPVVVK LNSGVDYRGI LTCLDGYMNI AMEQTEEYVN GQLKNTYGDA FVRGNNVLYI STTKGTLSDG A

Arabidopsis Description

LSM6BSm-like protein LSM36B [Source:UniProtKB/Swiss-Prot;Acc:O22823]
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.