PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Sobic.009G155200.1.p

Common Name

Sb09g021850, SORBIDRAFT_09g021850

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

C2H2

Protein Properties

Length: 404aa MW: 44367.8 Da PI: 7.7003

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.009G155200.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.9	1.7e-05	221	240	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 + C+ C+k+F+r n++ H+ Sobic.009G155200.1.p 221 FICHVCSKTFNRYNNMQMHM 240 89*****************9 PP
2	zf-C2H2	12.2	0.00057	307	329	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C Cgk+F k + ++H +++ Sobic.009G155200.1.p 307 FGCRRCGKPFAVKGDWRTHEKNC 329 56*****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.38E-5	217	244	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.1E-4	221	240	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.138	221	248	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	223	243	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	7.25E-5	291	327	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 404 aa Download sequence Send to blast
MVLRACAVME AGTFSVPFYE WLKPRSSSSS PPPSPSSSSS TTSSTTLSTP SIDQLAAVDE 60 RHAMTCLPLL GRLEGRAATP DHGHNNPIKE ELLSNNIATT GGATRREEAA AAGVDLNIGL 120 PAAAATTGGR GYSSEEVPMD EEDDDEEEDF EEEEDEKHEK CKVEEAGGEQ QHGEMVVEPV 180 EQRSDYLRVG GEEGIKGFVG SRGRRYWIPT PAQILVGPVQ FICHVCSKTF NRYNNMQMHM 240 WGHGREYRKG PESLKGTQAA TLALLKLPCY CCAAGCRNNV AHPRARPLKD FRTLQTHYKR 300 KHGDKHFGCR RCGKPFAVKG DWRTHEKNCG KRWFCACGSD FKHKRSLNDH VRSFGGGHFS 360 VTPDQAAAVV PRPSLLMKPS KERIIRFDQQ GAAAPWNGAH AHA*

Sequence ? help Back to Top

Protein Sequence Length: 404 aa Download sequence Send to blast

MVLRACAVME AGTFSVPFYE WLKPRSSSSS PPPSPSSSSS TTSSTTLSTP SIDQLAAVDE  60
RHAMTCLPLL GRLEGRAATP DHGHNNPIKE ELLSNNIATT GGATRREEAA AAGVDLNIGL  120
PAAAATTGGR GYSSEEVPMD EEDDDEEEDF EEEEDEKHEK CKVEEAGGEQ QHGEMVVEPV  180
EQRSDYLRVG GEEGIKGFVG SRGRRYWIPT PAQILVGPVQ FICHVCSKTF NRYNNMQMHM  240
WGHGREYRKG PESLKGTQAA TLALLKLPCY CCAAGCRNNV AHPRARPLKD FRTLQTHYKR  300
KHGDKHFGCR RCGKPFAVKG DWRTHEKNCG KRWFCACGSD FKHKRSLNDH VRSFGGGHFS  360
VTPDQAAAVV PRPSLLMKPS KERIIRFDQQ GAAAPWNGAH AHA*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.20361	0.0	root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269\|PubMed:17600712}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269\|PubMed:17600712, ECO:0000269\|PubMed:23515580, ECO:0000269\|PubMed:25039392}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.009G155200.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK102658	0.0	AK102658.1 Oryza sativa Japonica Group cDNA clone:J033101H19, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002439878.1	0.0	protein TRANSPARENT TESTA 1
Swissprot	Q9SVY1	4e-93	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	C5YYT0	0.0	C5YYT0_SORBI; Uncharacterized protein
STRING	Sb09g021850.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4472	36	67
Representative plant	OGRP410	15	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08290.1	6e-92	WIP domain protein 3

Link Out ? help Back to Top
Phytozome	Sobic.009G155200.1.p
Entrez Gene	8072505

Publications ? help Back to Top
Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656]