Factsheet for Zm00001d012810_P003

Subcellular Localization

min:

: max

Winner_takes_all: plastid

Predictor Summary:

plastid 5
mitochondrion 1
nucleus 2

Predictors

GFP

MS/MS

Papers

plastid: 10889237

gfp PMID: 10889237 doi

SD Lahiri, LA Allison

Department of Biochemistry, University of Nebraska, N258 Beadle Center, Lincoln, Nebraska 68588-0664, USA.

PPI

Inferred distinct locusB in Crop

locusB	locations
Zm00001d017254_P002
Zm00001d017768_P006
Zm00001d020667_P001
Zm00001d038964_P001
Zm00001d039321_P008
Zm00001d051562_P001

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT2G36990.1	Zm00001d017768_P006	AT3G50910.1	21798944
AT2G36990.1	Zm00001d020667_P001	AT3G50910.1	21798944
AT2G36990.1	Zm00001d038964_P001	AT3G50910.1	21798944
AT2G36990.1	Zm00001d051562_P001	AT3G50910.1	21798944
AT2G36990.1	Zm00001d017254_P002	AT5G58720.1	21798944
AT2G36990.1	Zm00001d039321_P008	AT5G58720.1	21798944

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
KXG37075	Sorghum	plastid	87.85	67.75
TraesCS5D01G551200.1	Wheat	plastid	68.93	52.77
TraesCS5B01G563800.2	Wheat	plastid	69.39	52.75
TraesCS4A01G315700.3	Wheat	plastid	69.63	52.65
HORVU5Hr1G125110.10	Barley	plastid	67.29	52.08
Os08t0242800-01	Rice	plastid	68.93	51.57
CDX79708	Canola	endoplasmic reticulum, extracellular	10.98	31.54
CDY66142	Canola	nucleus	23.13	29.29
GSMUA_Achr11P...	Banana	nucleus	39.02	28.84
VIT_08s0040g01560.t01	Wine grape	plastid	36.22	27.63
Solyc09g008040.2.1	Tomato	nucleus, plastid	33.88	25.75
KRG96007	Soybean	nucleus	32.94	25.45
AT2G36990.1	Thale cress	plastid	32.48	25.41
Bra017213.1-P	Field mustard	plastid	31.54	25.33
CDY18468	Canola	plastid	32.01	25.18
KRH67719	Soybean	nucleus	32.48	25.09
PGSC0003DMT400055506	Potato	nucleus, plastid	33.88	24.91
KRH19920	Soybean	plastid	33.41	24.91
KRH32532	Soybean	nucleus, plastid	33.41	24.87
GSMUA_Achr4P30300_001	Banana	nucleus	11.45	24.38
Zm00001d028585_P001	Maize	plastid	23.83	19.32
Zm00001d049160_P002	Maize	plastid	24.3	18.81
Zm00001d024507_P001	Maize	plastid	16.12	15.33
Zm00001d049494_P001	Maize	plastid	17.99	15.28
Zm00001d039194_P001	Maize	plastid	15.42	13.28
Zm00001d039181_P001	Maize	nucleus	15.89	12.04

Protein Annotations

Gene3D:1.10.10.10	Gene3D:1.20.120.1810	MapMan:15.6.2.1	UniProt:A0A1D6GCS3	ProteinID:AQK61452.1	GO:GO:0003674
GO:GO:0003676	GO:GO:0003677	GO:GO:0003700	GO:GO:0005488	GO:GO:0005575	GO:GO:0005622
GO:GO:0005623	GO:GO:0005737	GO:GO:0006139	GO:GO:0006352	GO:GO:0006355	GO:GO:0007275
GO:GO:0008150	GO:GO:0008152	GO:GO:0009058	GO:GO:0009507	GO:GO:0009536	GO:GO:0009628
GO:GO:0009791	GO:GO:0009987	GO:GO:0016043	GO:GO:0016987	GO:GO:0045893	GO:GO:0071482
GO:GO:0071483	GO:GO:0090351	GO:GO:2000142	InterPro:IPR036388	PFAM:PF04539	PFAM:PF04542
PFAM:PF04545	PRINTS:PR00046	PANTHER:PTHR30603	PANTHER:PTHR30603:SF9	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
UniParc:UPI0008446949	InterPro:WH-like_DNA-bd_sf	EnsemblPlantsGene:Zm00001d012810	EnsemblPlants:Zm00001d012810_P003	EnsemblPlants:Zm00001d012810_T003	SEG:seg

Description

sigma-like factor6 sigma-like factor6

Coordinates

chr5:+:684919..687528

Molecular Weight (calculated)

48241.0 Da

IEP (calculated)

6.949

GRAVY (calculated)

-0.648

Length

428 amino acids

Sequence
(BLAST)

001: MNSSRSLLSS PLFASSSPNF RSSASVSSSP SPSRTTVPMI HDTSSSRAST ACHYSPSLVA EEQLHGSKDT LTLKGEKALL ELLLGMALDQ HVDGRKLITQ
101: QEAEDSDFES YLREATSRVL YQPTFIEEDD DDDSVSESSS ASLAKPAGTL DLGKLTEEPQ LDVPQPHRRS VDPNHSYDQV FIRSTRLLER RSKKRNGGHR
201: ALDNGVACSG VNSKRKDKFG RVLDPDEPFR LFLRDRETTE FLTAKEEKQM FSQIQNLMKL EGAQRNLQAQ CGREPTVEEW AQAVGMSCRE LQSCVRTGRR
301: CREKMARSNF RLVIHVARKY EGCGLDIQDL VQEITEDPNI EGPEVSVDRL MMRQQVRSFL TGILSPREKE IIEHRFGIHD GQPKTLHVIG DMYGLSKERI
401: RQVQNKALDK LRNSISAQGF HVYFDLLT

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.