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.002G169100.4

Common Name

B456_002G169100

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: 504aa MW: 54843.7 Da PI: 8.6673

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.002G169100.4	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	2.5e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gorai.002G169100.4 6 FICEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	13.4	0.00023	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gorai.002G169100.4 82 WKCEKCSKRYAVQSDWKAHSKTC 104 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	5.5E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.58E-7	5	28	No hit	No description
PROSITE profile	PS50157	10.99	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	6	28	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.4E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.58E-7	77	102	No hit	No description
SMART	SM00355	130	82	102	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: 504 aa Download sequence Send to blast
MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLRQKTTK EVKRKVYLCP EPTCVHHDPS 60 RALGDLTGIK KHYSRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 120 DSFITHRAFC DALAQENARQ PPSFNSIGNH LYGSTSNMSL GLSQVGTQMS SVQDQTSNNS 180 GGRDIFKLGG VARSTQFDHL LLSPSMGSSS FRPQQSMVSS AAFFMPESNQ EHHPQQGILG 240 NNKQYHQGLM MQFPEDIQNN TTNTPSPPSF FNLSFLSNCG NGTNPDANLT SSGLLTPEHF 300 DNETGGGGGG TSEASDPFSN TVMGNQITTN IPSVFAQSNN IAVQMSATAL LQKAAQMGST 360 SSYKNASLMR SFGNSNFGGT LGDSTGNNLH ELMNSIAGGG SNTFSFGHGQ ENPYANRSSV 420 EQEKHVEQQP QILNVSGGGG SDRLTRDFLG VGQIVRSMSM GGVSQREQQQ QQEAMGLSAL 480 GSERSNITAP TNHQCLGGNG NFQ*

Sequence ? help Back to Top

Protein Sequence Length: 504 aa Download sequence Send to blast

MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLRQKTTK EVKRKVYLCP EPTCVHHDPS  60
RALGDLTGIK KHYSRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  120
DSFITHRAFC DALAQENARQ PPSFNSIGNH LYGSTSNMSL GLSQVGTQMS SVQDQTSNNS  180
GGRDIFKLGG VARSTQFDHL LLSPSMGSSS FRPQQSMVSS AAFFMPESNQ EHHPQQGILG  240
NNKQYHQGLM MQFPEDIQNN TTNTPSPPSF FNLSFLSNCG NGTNPDANLT SSGLLTPEHF  300
DNETGGGGGG TSEASDPFSN TVMGNQITTN IPSVFAQSNN IAVQMSATAL LQKAAQMGST  360
SSYKNASLMR SFGNSNFGGT LGDSTGNNLH ELMNSIAGGG SNTFSFGHGQ ENPYANRSSV  420
EQEKHVEQQP QILNVSGGGG SDRLTRDFLG VGQIVRSMSM GGVSQREQQQ QQEAMGLSAL  480
GSERSNITAP TNHQCLGGNG NFQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	78	139	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-34	78	139	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_012467157.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X1
Refseq	XP_012467158.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X2
Swissprot	Q9ZUL3	1e-120	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0D2MC44	0.0	A0A0D2MC44_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-117	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Gorai.002G169100.4

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]