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

Gh_D09G1017

Organism

Gossypium hirsutum

Taxonomic ID

3635

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: 447aa MW: 49407.4 Da PI: 9.6116

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D09G1017	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.3	0.00012	8	28	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++C+k F r nL+ H r H Gh_D09G1017 8 CEICNKGFQRDQNLQLHRRGH 28 *******************88 PP
2	zf-C2H2	12.1	0.00062	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H + + Gh_D09G1017 82 WKCEKCSKKYAVQSDWKAHSKIC 104 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	2.0E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.93E-7	5	28	No hit	No description
SMART	SM00355	0.11	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.824	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.3E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.93E-7	77	102	No hit	No description
SMART	SM00355	140	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: 447 aa Download sequence Send to blast
MATNRFLCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVRKKVYICP EKTCVHHDPS 60 RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYR CDCGTLFSRK 120 DSFITHRAFC DALAEESGRF TSVSTTTMNP SAFTNDLTHI GGADNYETGF RPEFAAGSEL 180 VDSGLQKPRL QLWLDQANSQ LNPIGIQSNA NAFLAPKSTS LPELGIAAAP MNMFGSLSQS 240 QQWLSQYPQA SFPGANLSMS SVLQRGPKQE ENMGDLSESI TSLYSNNTRN SLRQNHTHMS 300 ATALLQKAAQ TGSTRSNPAI TNSGLFGLMS SPASTIPSPI NDHNKNEAYY KLFKQANQSE 360 NINEVVSSLP STQAAIIKDG SFVNNASMKA NERQGGQAVA SKLNTNANEV EASLTRDFLG 420 VGSESSRPFF QQEFAKFASM GSVQPWS

Sequence ? help Back to Top

Protein Sequence Length: 447 aa Download sequence Send to blast

MATNRFLCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVRKKVYICP EKTCVHHDPS  60
RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYR CDCGTLFSRK  120
DSFITHRAFC DALAEESGRF TSVSTTTMNP SAFTNDLTHI GGADNYETGF RPEFAAGSEL  180
VDSGLQKPRL QLWLDQANSQ LNPIGIQSNA NAFLAPKSTS LPELGIAAAP MNMFGSLSQS  240
QQWLSQYPQA SFPGANLSMS SVLQRGPKQE ENMGDLSESI TSLYSNNTRN SLRQNHTHMS  300
ATALLQKAAQ TGSTRSNPAI TNSGLFGLMS SPASTIPSPI NDHNKNEAYY KLFKQANQSE  360
NINEVVSSLP STQAAIIKDG SFVNNASMKA NERQGGQAVA SKLNTNANEV EASLTRDFLG  420
VGSESSRPFF QQEFAKFASM GSVQPWS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-36	78	144	3	69	Zinc finger protein JACKDAW
5b3h_F	1e-36	78	144	3	69	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	32	44	KLKQRTNKEVRKK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, especially in vascular initials, cortex, endodermis, and quiescent center (QC). {ECO:0000269\|PubMed:25829440}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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:24821766, ECO:0000269\|PubMed:25829440}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX577569	1e-100	JX577569.1 Gossypium hirsutum clone NBRI_GE9421 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016671802.1	0.0	PREDICTED: protein indeterminate-domain 9-like
Swissprot	Q944L3	1e-103	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	A0A1U8I0P0	0.0	A0A1U8I0P0_GOSHI; protein indeterminate-domain 9-like
STRING	Gorai.006G120000.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G45260.1	2e-92	C2H2-like zinc finger protein

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]