Factsheet for PGSC0003DMT400055506

Subcellular Localization

min:

: max

Winner_takes_all: plastid, nucleus

Predictor Summary:

plastid 4
mitochondrion 1
nucleus 2
cytosol 1

Predictors

GFP

MS/MS

Papers

PPI

Inferred distinct locusB in Crop

locusB	locations
PGSC0003DMT400009054
PGSC0003DMT400010646

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT2G36990.1	PGSC0003DMT400009054	AT3G50910.1	21798944
AT2G36990.1	PGSC0003DMT400010646	AT5G58720.1	21798944

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
Solyc09g008040.2.1	Tomato	nucleus, plastid	93.47	96.63
CDY66142	Canola	nucleus	38.83	66.86
GSMUA_Achr4P30300_001	Banana	nucleus	21.13	61.19
CDX79708	Canola	endoplasmic reticulum, extracellular	15.64	61.07
VIT_08s0040g01560.t01	Wine grape	plastid	55.5	57.58
Bra017213.1-P	Field mustard	plastid	51.89	56.66
CDY18468	Canola	plastid	52.23	55.88
AT2G36990.1	Thale cress	plastid	52.06	55.39
KRH32532	Soybean	nucleus, plastid	51.03	51.65
KRH19920	Soybean	plastid	49.83	50.52
KRG96007	Soybean	nucleus	47.77	50.18
KRH67719	Soybean	nucleus	47.25	49.64
GSMUA_Achr11P...	Banana	nucleus	45.88	46.11
PGSC0003DMT400010456	Potato	nucleus	4.98	42.03
KXG37075	Sorghum	plastid	36.94	38.74
Os08t0242800-01	Rice	plastid	37.46	38.11
TraesCS5B01G563800.2	Wheat	plastid	36.43	37.66
HORVU5Hr1G125110.10	Barley	plastid	35.57	37.43
TraesCS5D01G551200.1	Wheat	plastid	35.91	37.39
TraesCS4A01G315700.3	Wheat	plastid	36.25	37.28
PGSC0003DMT400017455	Potato	nucleus	17.18	36.5
Zm00001d012810_P003	Maize	plastid	24.91	33.88
PGSC0003DMT400079883	Potato	plastid	26.8	25.45
PGSC0003DMT400069555	Potato	nucleus	21.99	25.35
PGSC0003DMT400023432	Potato	plastid	19.42	21.9
PGSC0003DMT400065483	Potato	mitochondrion	20.45	21.44
PGSC0003DMT400068109	Potato	nucleus	19.93	19.02

Protein Annotations

Gene3D:1.10.10.10	Gene3D:1.10.601.10	EntrezGene:102599838	MapMan:15.6.2.1	GO:GO:0003674	GO:GO:0003676
GO:GO:0003677	GO:GO:0003700	GO:GO:0005488	GO:GO:0006139	GO:GO:0006352	GO:GO:0006355
GO:GO:0008150	GO:GO:0008152	GO:GO:0009058	GO:GO:0009987	GO:GO:0016043	GO:GO:0016987
GO:GO:2000142	InterPro:IPR036388	UniProt:M1BY20	PFAM:PF04539	PFAM:PF04542	PFAM:PF04545
EnsemblPlantsGene:PGSC0003DMG400021553	PGSC:PGSC0003DMG400021553	EnsemblPlants:PGSC0003DMT400055506	PRINTS:PR00046	ScanProsite:PS00715	ScanProsite:PS00716
PANTHER:PTHR30603	PANTHER:PTHR30603:SF9	InterPro:RNA_pol_sigma-70_dom	InterPro:RNA_pol_sigma70	InterPro:RNA_pol_sigma70_r2	InterPro:RNA_pol_sigma70_r3
InterPro:RNA_pol_sigma70_r4	InterPro:RNA_pol_sigma_r2	InterPro:RNA_pol_sigma_r3/r4-like	SUPFAM:SSF88659	SUPFAM:SSF88946	TIGRFAMs:TIGR02937
UniParc:UPI000294A3E4	InterPro:WH-like_DNA-bd_sf	SEG:seg	:	:	:

Description

RNA polymerase sigma factor rpoD [Source:PGSC_GENE;Acc:PGSC0003DMG400021553]

Coordinates

chr9:-:5356706..5363190

Molecular Weight (calculated)

65910.3 Da

IEP (calculated)

10.116

GRAVY (calculated)

-0.511

Length

582 amino acids

Sequence
(BLAST)

001: MEAAGRNLLS SPPTFSQKTQ LRNCSSSVLM LHEHAAPVLS SVPHAYLGRH VPASAIGPEQ QFENRLQLHL VKEEKTSLAT IDRRLVDAAS SELEENDAVD
101: SEQNINALQV QLLRCPGPSY SFPPYYLKGK GPLSPNKEPL HSKGDKLMNF EPHSVVALAR KALLASREAA LLAEDSKLLD DSNFPNFLST NLVDDKLKEQ
201: RTVRSTRFTE RQSRKRGAPK PTQQVQETNR SGRPDVRRKV NESIDLNDPL RMFLWGPETK QLLTAKEESE LIVKIQISMK LQEVKHQLQI QFAHEPTSVE
301: WAEAAGITSR ELKSQLLSGK SSREKLINAN LRMVVHIAKQ YQGRGLNLQD LLQEGSMGLM KSVEKFKPQA GCRFPTYAYW WIRQSVRKAI FQHSRTIRLP
401: ENVYALLSKV KDAKKECIQQ GNRYPTKEDI ASCAGMSVER LQNLLSNVRT PLSMQQSVWS DQDTTFQEIF DLVLTVAKER ISFFSIQEIT ADNAIEAPEL
501: SVSKQLMRRH IRGLLNVLSP KERKIIRLRF GIGDGKPKSL SEIGTVFGLS KERVRQLETR ALYKLKQNLN KHGLDAYSDL LF

Best Arabidopsis Sequence Match ( AT2G36990.1 )
(BLAST)

001: MEATRNLVSS SPSFQTKTHL KSSYSSPSSV VMLHDQTTTP VVNSRHLNSL SRHFPASVLS QEPREESRPL SHALRDDRTS QLTLERRQFD ELVSSREDEK
101: FEQQLLHSTG LWNLLISPLT SETKLPAVVS PLADAELCDV VALAQKALSA SKQAALLVDD TEANPSDNIK DSLSTSSSMS LPEKGNIVRS KRQLERRAKN
201: RRAPKSNDVD DEGYVPQKTS AKKKYKQGAD NDDALQLFLW GPETKQLLTA KEEAELISHI QHLLKLEKVK TKLESQNGCE PTIGEWAEAM GISSPVLKSD
301: IHRGRSSREK LITANLRLVV HIAKQYQNRG LNFQDLLQEG SMGLMKSVEK FKPQSGCRFA TYAYWWIRQS IRKSIFQNSR TIRLPENVYM LLGKVSEARK
401: TCVQEGNYRP SKEELAGHVG VSTEKLDKLL YNTRTPLSMQ QPIWSDQDTT FQEITPDSGI ETPTMSVGKQ LMRNHVRNLL NVLSPKERRI IKLRFGIDGG
501: KQRSLSEIGE IYGLSKERVR QLESRALYRL KQNMNSHGLH AYADLLV

Arabidopsis Description

SIGFRNA polymerase sigma factor sigF, chloroplastic [Source:UniProtKB/Swiss-Prot;Acc:Q9LD95]
SUBAcon: [plastid]

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.