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

Cotton_A_37867_BGI-A2_v1.0

Organism

Gossypium arboreum

Taxonomic ID

29729

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: 565aa MW: 61416.3 Da PI: 8.9594

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_37867_BGI-A2_v1.0	genome	BGI	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	65	87	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Cotton_A_37867_BGI-A2_v1.0 65 FICEVCNKGFQREQNLQLHRRGH 87 89*******************88 PP
2	zf-C2H2	13.2	0.00027	141	163	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Cotton_A_37867_BGI-A2_v1.0 141 WKCEKCSKRYAVQSDWKAHSKTC 163 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	6.3E-6	64	87	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.67E-7	64	87	No hit	No description
SMART	SM00355	0.0052	65	87	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	65	87	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.8E-5	65	87	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	67	87	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	106	136	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.0E-5	129	162	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.67E-7	136	161	No hit	No description
SMART	SM00355	130	141	161	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: 565 aa Download sequence Send to blast
MAASSSLGPF GIREEDQHQH STAAPTSAMG PAPPPPQRKK RNQPVHPDVE VIALSPKSLM 60 ATNRFICEVC NKGFQREQNL QLHRRGHNLP WKLRQKTTKE VKRKVYLCPE PTCVHHDPSR 120 ALGDLTGIKK HYSRKHGEKK WKCEKCSKRY AVQSDWKAHS KTCGTREYRC DCGTLFSRRD 180 SFITHRAFCD ALAQENARQP PSFNSIGNHL YGSTGNICLG LSQVGTQMSS VQDQANNNSG 240 GRDIFKLGGV ARSTQFDHLL LSPSMGSSSS SSFRPQQSIV SSAAFFMPES NQEHHPQQGI 300 LGNNKQYHQG LMMQFPADIQ NNTTNTPSPP SFFNLSFLSN CGNDINLDAN LTSSGLLTPE 360 HFKNETGGGG GGTSEASDPF SNTVMGNQIT TNIPSVFAQS NNIAVQMSAT ALLQKAAQMG 420 STSSYKNASL MRSFGNSKFG GTLGDSTGNN LHELMNSIAG GGSNTYSFGH GQENPYANRS 480 SVEQEKHLEQ QPQILNVSGG CGSDRLTRDF LGVGQIVRSM SMGGVSQREQ QQQQEAMGLS 540 ALGSERSNIT APTNHQCLGG NGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 565 aa Download sequence Send to blast

MAASSSLGPF GIREEDQHQH STAAPTSAMG PAPPPPQRKK RNQPVHPDVE VIALSPKSLM  60
ATNRFICEVC NKGFQREQNL QLHRRGHNLP WKLRQKTTKE VKRKVYLCPE PTCVHHDPSR  120
ALGDLTGIKK HYSRKHGEKK WKCEKCSKRY AVQSDWKAHS KTCGTREYRC DCGTLFSRRD  180
SFITHRAFCD ALAQENARQP PSFNSIGNHL YGSTGNICLG LSQVGTQMSS VQDQANNNSG  240
GRDIFKLGGV ARSTQFDHLL LSPSMGSSSS SSFRPQQSIV SSAAFFMPES NQEHHPQQGI  300
LGNNKQYHQG LMMQFPADIQ NNTTNTPSPP SFFNLSFLSN CGNDINLDAN LTSSGLLTPE  360
HFKNETGGGG GGTSEASDPF SNTVMGNQIT TNIPSVFAQS NNIAVQMSAT ALLQKAAQMG  420
STSSYKNASL MRSFGNSKFG GTLGDSTGNN LHELMNSIAG GGSNTYSFGH GQENPYANRS  480
SVEQEKHLEQ QPQILNVSGG CGSDRLTRDF LGVGQIVRSM SMGGVSQREQ QQQQEAMGLS  540
ALGSERSNIT APTNHQCLGG NGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	137	198	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-34	137	198	3	64	Zinc finger protein JACKDAW
Search in ModeBase

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

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_017642443.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X1
Swissprot	Q9ZUL3	1e-129	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A1U8L014	0.0	A0A1U8L014_GOSHI; protein indeterminate-domain 5, chloroplastic-like isoform X1
STRING	Gorai.002G169100.1	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
AT2G02070.1	1e-113	indeterminate(ID)-domain 5

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]