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

Gorai.002G169100.3

Common Name

B456_002G169100, LOC105785593

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 521aa MW: 56696.9 Da PI: 8.5498

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.002G169100.3	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.4	2.6e-05	23	45	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gorai.002G169100.3 23 FICEVCNKGFQREQNLQLHRRGH 45 89*******************88 PP
2	zf-C2H2	13.3	0.00024	99	121	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gorai.002G169100.3 99 WKCEKCSKRYAVQSDWKAHSKTC 121 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.7E-6	22	45	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.07E-7	22	45	No hit	No description
PROSITE profile	PS50157	10.99	23	45	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.5E-5	23	45	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	23	45	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	25	45	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	64	94	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-5	87	120	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.07E-7	94	119	No hit	No description
SMART	SM00355	130	99	119	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: 521 aa Download sequence Send to blast
MTRDPDVEVI ALSPKSLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK LRQKTTKEVK 60 RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY SRKHGEKKWK CEKCSKRYAV QSDWKAHSKT 120 CGTREYRCDC GTLFSRRDSF ITHRAFCDAL AQENARQPPS FNSIGNHLYG STSNMSLGLS 180 QVGTQMSSVQ DQTSNNSGGR DIFKLGGVAR STQFDHLLLS PSMGSSSFRP QQSMVSSAAF 240 FMPESNQEHH PQQGILGNNK QYHQGLMMQF PEDIQNNTTN TPSPPSFFNL SFLSNCGNGT 300 NPDANLTSSG LLTPEHFDNE TGGGGGGTSE ASDPFSNTVM GNQITTNIPS VFAQSNNIAV 360 QMSATALLQK AAQMGSTSSY KNASLMRSFG NSNFGGTLGD STGNNLHELM NSIAGGGSNT 420 FSFGHGQENP YANRSSVEQE KHVEQQPQIL NVSGGGGSDR LTRDFLGVGQ IVRSMSMGGV 480 SQREQQQQQE AMGLSALGSE RSNITAPTNH QCLGGNGNFQ *

Sequence ? help Back to Top

Protein Sequence Length: 521 aa Download sequence Send to blast

MTRDPDVEVI ALSPKSLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK LRQKTTKEVK  60
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY SRKHGEKKWK CEKCSKRYAV QSDWKAHSKT  120
CGTREYRCDC GTLFSRRDSF ITHRAFCDAL AQENARQPPS FNSIGNHLYG STSNMSLGLS  180
QVGTQMSSVQ DQTSNNSGGR DIFKLGGVAR STQFDHLLLS PSMGSSSFRP QQSMVSSAAF  240
FMPESNQEHH PQQGILGNNK QYHQGLMMQF PEDIQNNTTN TPSPPSFFNL SFLSNCGNGT  300
NPDANLTSSG LLTPEHFDNE TGGGGGGTSE ASDPFSNTVM GNQITTNIPS VFAQSNNIAV  360
QMSATALLQK AAQMGSTSSY KNASLMRSFG NSNFGGTLGD STGNNLHELM NSIAGGGSNT  420
FSFGHGQENP YANRSSVEQE KHVEQQPQIL NVSGGGGSDR LTRDFLGVGQ IVRSMSMGGV  480
SQREQQQQQE AMGLSALGSE RSNITAPTNH QCLGGNGNFQ *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	95	156	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-34	95	156	3	64	Zinc finger protein JACKDAW
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305\|PubMed:22898356}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:22898356, ECO:0000269\|PubMed:24821766}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX614588	0.0	JX614588.1 Gossypium hirsutum clone NBRI_GE58088 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012467158.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X2
Swissprot	Q9ZUL3	1e-128	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0D2QEC7	0.0	A0A0D2QEC7_GOSRA; Uncharacterized protein
STRING	Gorai.002G169100.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-125	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Gorai.002G169100.3
Entrez Gene	105785593

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]