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

676758258

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium

Family

C2H2

Protein Properties

Length: 602aa MW: 64755 Da PI: 9.3517

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676758258	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.1e-05	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H 676758258 82 FICEVCNKGFQREQNLQLHRRGH 104 89*******************88 PP
2	zf-C2H2	13.1	0.00029	158	180	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ 676758258 158 WKCEKCSKRYAVQSDWKAHSKTC 180 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.88E-7	81	104	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.8E-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	3.0E-5	82	104	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	84	104	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	123	153	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.8E-5	146	179	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.88E-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: 602 aa Download sequence Send to blast
MAASSSSAAS FFGVRQDDQP HLLPPNSSAA APPPPPHHQP PQPQQPLEAP PQKKKRNQPR 60 TPNSDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKR 120 KVYLCPEPTC VHHDPSRALG DLTGIKKHYY RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC 180 GTKEYRCDCG TLFSRRDSFI THRAFCDALA QESARHPTSL TSLPSHHFQY GQNTNNSNNN 240 NTSSMILGLS HMGAPQNLDH QSGDVLRLGS GGGGGGAASR SSSDLIAANA SGYFMQEQNP 300 SFHDQQDHHH HHQHQQQGFL AASSNIKPSP MNFQQSLMQF SHDNHNSTSS NLFNLSFLSG 360 NNGVASATSN PNAAAVSSGN IMISNHFDGE NAVGGGGGEG STGLFPNNLM SSADRISSGT 420 VPSLFSSSMQ NPNSTPHMSA TALLQKAAQM GSTSSSNNNN VSSNNNNNNA SSILRSFGSG 480 MYGENESNLH DLMNSFSNPG ATGNNVNGVD SPFGSYGGVS KGLNADKQSM TRDFLGVGQI 540 VRSMSGSGGF QQQQQQQQQQ HGNSTRERVA SSSDSADRNS INVNPGGGPA SSPPYGIHHA 600 SF

Sequence ? help Back to Top

Protein Sequence Length: 602 aa Download sequence Send to blast

MAASSSSAAS FFGVRQDDQP HLLPPNSSAA APPPPPHHQP PQPQQPLEAP PQKKKRNQPR  60
TPNSDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKR  120
KVYLCPEPTC VHHDPSRALG DLTGIKKHYY RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC  180
GTKEYRCDCG TLFSRRDSFI THRAFCDALA QESARHPTSL TSLPSHHFQY GQNTNNSNNN  240
NTSSMILGLS HMGAPQNLDH QSGDVLRLGS GGGGGGAASR SSSDLIAANA SGYFMQEQNP  300
SFHDQQDHHH HHQHQQQGFL AASSNIKPSP MNFQQSLMQF SHDNHNSTSS NLFNLSFLSG  360
NNGVASATSN PNAAAVSSGN IMISNHFDGE NAVGGGGGEG STGLFPNNLM SSADRISSGT  420
VPSLFSSSMQ NPNSTPHMSA TALLQKAAQM GSTSSSNNNN VSSNNNNNNA SSILRSFGSG  480
MYGENESNLH DLMNSFSNPG ATGNNVNGVD SPFGSYGGVS KGLNADKQSM TRDFLGVGQI  540
VRSMSGSGGF QQQQQQQQQQ HGNSTRERVA SSSDSADRNS INVNPGGGPA SSPPYGIHHA  600
SF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	8e-34	154	215	3	64	Zinc finger protein JACKDAW
5b3h_F	8e-34	154	215	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676758258

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	AJ621495	0.0	AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene).
GenBank	AY056174	0.0	AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBank	BT001215	0.0	BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009123129.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	0.0	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A397Y3X1	0.0	A0A397Y3X1_BRACM; Uncharacterized protein
STRING	Bra040974.1-P	0.0	(Brassica rapa)

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	0.0	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]