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.007G212900.1.p

Common Name

Sb07g028010, SORBIDRAFT_07g028010

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: 429aa MW: 46189.8 Da PI: 6.4468

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.007G212900.1.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	16.2	3e-05	248	267	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ Sobic.007G212900.1.p 248 FSCPVCYKTFNRYNNMQMHM 267 89*****************9 PP
2	zf-C2H2	12.5	0.00045	334	354	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C +Cgk F k + ++H +++ Sobic.007G212900.1.p 334 CRKCGKAFAVKGDWRTHEKNC 354 *****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	9.06E-5	244	270	No hit	No description
PROSITE profile	PS50157	9.743	248	275	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	7.7E-6	248	267	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.45	248	270	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	250	270	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	3.58E-6	316	352	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.6E-5	319	352	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	8.621	332	352	IPR007087	Zinc finger, C2H2
SMART	SM00355	82	332	352	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	220	358	381	IPR015880	Zinc finger, C2H2-like

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: 429 aa Download sequence Send to blast
MEDPYRSFFK NSYYYYASSY PAAPAPHHLP PSLPPYTSLY PAAAAPQYHP ACFFQPPPPS 60 SLPPLHDSPP SPPLREALPL LSQSPTRAAS RAQPRPHVAV DSDSEDDADD FVLREAVGSS 120 VTPSTRAPLF ADLNCMPSCC DAEGDPMDLE AAAPTDDDAA VALRIGLPPA PVNGGCGGAE 180 ADLLSGLSGR AGCGGMEHEE DEDECKVDTG DGDEVVPLGF ASTPIGKLNK GQYWIPTPAQ 240 ILIGPTQFSC PVCYKTFNRY NNMQMHMWGH GSQYRKGPES LRGVQPTAML RLPCYCCAPG 300 CRNNIDHPRA RPLKDFRTLQ THYKRKHGLK PFLCRKCGKA FAVKGDWRTH EKNCGKLWYC 360 LCGSEFKHKR SLKDHARAFG HGHGAFGCNL DGGSGADGLD DDDDGAVSEI EHDLCAAACS 420 SRSAAAAR*

Sequence ? help Back to Top

Protein Sequence Length: 429 aa Download sequence Send to blast

MEDPYRSFFK NSYYYYASSY PAAPAPHHLP PSLPPYTSLY PAAAAPQYHP ACFFQPPPPS  60
SLPPLHDSPP SPPLREALPL LSQSPTRAAS RAQPRPHVAV DSDSEDDADD FVLREAVGSS  120
VTPSTRAPLF ADLNCMPSCC DAEGDPMDLE AAAPTDDDAA VALRIGLPPA PVNGGCGGAE  180
ADLLSGLSGR AGCGGMEHEE DEDECKVDTG DGDEVVPLGF ASTPIGKLNK GQYWIPTPAQ  240
ILIGPTQFSC PVCYKTFNRY NNMQMHMWGH GSQYRKGPES LRGVQPTAML RLPCYCCAPG  300
CRNNIDHPRA RPLKDFRTLQ THYKRKHGLK PFLCRKCGKA FAVKGDWRTH EKNCGKLWYC  360
LCGSEFKHKR SLKDHARAFG HGHGAFGCNL DGGSGADGLD DDDDGAVSEI EHDLCAAACS  420
SRSAAAAR*

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.007G212900.1.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	FP096907	0.0	FP096907.1 Phyllostachys edulis cDNA clone: bphylf041f10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002445917.1	0.0	zinc finger protein WIP2
Swissprot	Q9SVY1	1e-115	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	C5YJ42	0.0	C5YJ42_SORBI; Uncharacterized protein
STRING	Sb07g028010.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP586	38	170
Representative plant	OGRP410	15	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57670.1	1e-107	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Sobic.007G212900.1.p
Entrez Gene	8055191

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]