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

AA53G00686

Organism

Aethionema arabicum

Taxonomic ID

228871

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 579aa MW: 62740.8 Da PI: 9.4319

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AA53G00686	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	3e-05	77	99	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H AA53G00686 77 FICEVCNKGFQREQNLQLHRRGH 99 89*******************88 PP
2	zf-C2H2	13.1	0.00028	153	175	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ AA53G00686 153 WKCEKCSKRYAVQSDWKAHSKTC 175 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	6.5E-6	76	99	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.15E-7	76	99	No hit	No description
SMART	SM00355	0.0052	77	99	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.8E-5	77	99	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	77	99	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	79	99	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	118	148	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.6E-5	141	174	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.15E-7	148	173	No hit	No description
SMART	SM00355	130	153	173	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: 579 aa Download sequence Send to blast
MAASSSSAAS FFGVRQDDQS HHLPLPPSSS AAGAAAPPPQ LLETQPPKKK RNQPRTPNSD 60 AEVIALSPKT LMATNRFICE VCNKGFQREQ NLQLHRRGHN LPWKLKQKST KEVKRKVYLC 120 PEPTCVHHDP SRALGDLTGI KKHYYRKHGE KKWKCEKCSK RYAVQSDWKA HSKTCGTKEY 180 RCDCGTLFSR RDSFITHRAF CDALAQESAR HPTTTLTSLP SHHFPYGQSN TNNTNNNTNT 240 SSMLLGLSHL DHHHHHQTGD VLRLGNTGGG SVSRASTDLI NASNYFMQEQ QQQNPSFQDH 300 QQGYLGNNKN QNSAMSYHNL MQFSHDHQNH HNNSQSSNLF NLSFLNNGAP TATSNVAVSS 360 GNNLMISNPF DGENAVNLGG GDQGTTSTGL FPNNLMNSGD RINSGAVPSL FSSSLQNTNS 420 SPHMSATALL QKAAQMSSTS SGTNNNNNNN NNNASSILRS FGSGIYGENE SNLHDLMNSF 480 STPGPGNGVD STFGSYGGIN KGLNVDNKSQ NMTRDFLGVG QIVRSMSGGG ATGGFQQQQQ 540 HGNSRERLGS SSDSADRNSL PGGAPASSPP YGSMHHGSF

Sequence ? help Back to Top

Protein Sequence Length: 579 aa Download sequence Send to blast

MAASSSSAAS FFGVRQDDQS HHLPLPPSSS AAGAAAPPPQ LLETQPPKKK RNQPRTPNSD  60
AEVIALSPKT LMATNRFICE VCNKGFQREQ NLQLHRRGHN LPWKLKQKST KEVKRKVYLC  120
PEPTCVHHDP SRALGDLTGI KKHYYRKHGE KKWKCEKCSK RYAVQSDWKA HSKTCGTKEY  180
RCDCGTLFSR RDSFITHRAF CDALAQESAR HPTTTLTSLP SHHFPYGQSN TNNTNNNTNT  240
SSMLLGLSHL DHHHHHQTGD VLRLGNTGGG SVSRASTDLI NASNYFMQEQ QQQNPSFQDH  300
QQGYLGNNKN QNSAMSYHNL MQFSHDHQNH HNNSQSSNLF NLSFLNNGAP TATSNVAVSS  360
GNNLMISNPF DGENAVNLGG GDQGTTSTGL FPNNLMNSGD RINSGAVPSL FSSSLQNTNS  420
SPHMSATALL QKAAQMSSTS SGTNNNNNNN NNNASSILRS FGSGIYGENE SNLHDLMNSF  480
STPGPGNGVD STFGSYGGIN KGLNVDNKSQ NMTRDFLGVG QIVRSMSGGG ATGGFQQQQQ  540
HGNSRERLGS SSDSADRNSL PGGAPASSPP YGSMHHGSF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-33	149	210	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-33	149	210	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	AA53G00686

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018434643.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	0.0	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	M4ECV7	0.0	M4ECV7_BRARP; Uncharacterized protein
STRING	Bra026617.1-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]