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_A12G1411

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: 570aa MW: 61412.4 Da PI: 9.3695

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A12G1411	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	16.2	2.9e-05	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gh_A12G1411 82 FICEVCNKGFQREQNLQLHRRGH 104 89*******************88 PP
2	zf-C2H2	13.2	0.00027	158	180	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gh_A12G1411 158 WKCEKCSKRYAVQSDWKAHSKTC 180 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.67E-7	81	104	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.3E-6	81	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	82	104	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	82	104	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.8E-5	82	104	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	84	104	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	123	153	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.1E-5	146	179	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.67E-7	153	178	No hit	No description
SMART	SM00355	130	158	178	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: 570 aa Download sequence Send to blast
MATASSSATF FGNSAENENP MIKQQSSAAP TSSTAPTTAP HSKKKRNQPG TPSKYLFTYI 60 SLYPDVEVIA LSPKSLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKK 120 KVYLCPEPTC VHHEPSRALG DLTGIKKHYS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC 180 GTREYRCDCG TLFSRRDSFI THRAFCDALA QETARHPTNN LTPIGSHHLF GGNHHQMSLG 240 LSQNQPLSSN MLRLGSGTGV AKFEHLNSTA SNPSSLQNMP AFFMGDAANQ GFLPEHQSHH 300 GNGPYINKPL HGLMQLPDLQ GNTNSTAPNS ANLFNLGFFP SNSGASSIST GENGGASNSG 360 FLSGNQFNMG DVQVGSGMAS LYSSSSMQHE NISPNMSATA LLQKAAQMGS TTSNNTCSLL 420 RGLGSSSSSG IKSDRQVFSP NNFESGGSLR SQMENDSNLQ GLMNSLANGN SSIFGQDHSN 480 FGGFTGNGMT VEHHSNNANF SNVDEAKLHQ KLGVRIGETD KLTLDFLGVG EMVGNMGGNG 540 QHGINIGSLN PDVKSSAQAT SQQFGCPKLV

Sequence ? help Back to Top

Protein Sequence Length: 570 aa Download sequence Send to blast

MATASSSATF FGNSAENENP MIKQQSSAAP TSSTAPTTAP HSKKKRNQPG TPSKYLFTYI  60
SLYPDVEVIA LSPKSLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKK  120
KVYLCPEPTC VHHEPSRALG DLTGIKKHYS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC  180
GTREYRCDCG TLFSRRDSFI THRAFCDALA QETARHPTNN LTPIGSHHLF GGNHHQMSLG  240
LSQNQPLSSN MLRLGSGTGV AKFEHLNSTA SNPSSLQNMP AFFMGDAANQ GFLPEHQSHH  300
GNGPYINKPL HGLMQLPDLQ GNTNSTAPNS ANLFNLGFFP SNSGASSIST GENGGASNSG  360
FLSGNQFNMG DVQVGSGMAS LYSSSSMQHE NISPNMSATA LLQKAAQMGS TTSNNTCSLL  420
RGLGSSSSSG IKSDRQVFSP NNFESGGSLR SQMENDSNLQ GLMNSLANGN SSIFGQDHSN  480
FGGFTGNGMT VEHHSNNANF SNVDEAKLHQ KLGVRIGETD KLTLDFLGVG EMVGNMGGNG  540
QHGINIGSLN PDVKSSAQAT SQQFGCPKLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-35	154	215	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-35	154	215	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.19258	0.0	boll

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:0000305\|PubMed:19726569}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00256	DAP	Transfer from AT2G02080	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016703114.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic-like
Swissprot	Q8GYC1	1e-136	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1U8KQX2	0.0	A0A1U8KQX2_GOSHI; protein indeterminate-domain 4, chloroplastic-like
STRING	Gorai.008G168900.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4373	26	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	1e-114	indeterminate(ID)-domain 4

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]