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

XP_010527848.1

Organism

Tarenaya hassleriana

Taxonomic ID

28532

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya

Family

C2H2

Protein Properties

Length: 520aa MW: 56765.1 Da PI: 9.3899

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010527848.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.4	2.6e-05	79	101	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H XP_010527848.1 79 FICEVCNKGFQREQNLQLHRRGH 101 89*******************88 PP
2	zf-C2H2	12.7	0.00039	155	177	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ XP_010527848.1 155 WKCDKCSKRYAVQSDWKAHSKTC 177 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.31E-7	78	101	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.7E-6	78	101	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0052	79	101	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	79	101	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.5E-5	79	101	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	81	101	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	120	150	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.4E-5	143	176	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.31E-7	150	175	No hit	No description
SMART	SM00355	140	155	175	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: 520 aa Download sequence Send to blast
MSSSYTISSS SSHPFLFTAA AAAPTGENDF NRKETPTMMP PHNPSAPPPK KRRNQPGNPN 60 PDAEVIALSP KTLMTTNRFI CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK SNKEVKRKVY 120 LCPEPTCVHH DPSRALGDLT GIKKHYYRKH GEKKWKCDKC SKRYAVQSDW KAHSKTCGTK 180 EYRCDCGTIF SRRDSFITHR AFCDALMQET ARNPTVSFTA MAAAGGGSTG RHGFYGPRLG 240 GGSLSQSIGN SSNSSFTPVG SYNLNRTFSD NNMQRLGVGT DRADKFGGFM SHVPNPNSSA 300 FFMQCPSSQG LMNPNDPSFM NQHGLLQLDP TNLHINPNGN NNNNHNDFFN LGFFQENNAK 360 NSETNVIYSD GLVNHQHHHQ QDNLNTSSNM SATALLQKAT QIGSTVMATA NNNDPSALFR 420 GLVSSSSSTA VDVDKFGGQT ENDNDHLQGL MNSLAGGGGG IFDAHFGDNP NICGSDKLTL 480 DLLGVGGMMR SVTGGGGGRG RGSFDAEIKF SQPNHPFRRP

Sequence ? help Back to Top

Protein Sequence Length: 520 aa Download sequence Send to blast

MSSSYTISSS SSHPFLFTAA AAAPTGENDF NRKETPTMMP PHNPSAPPPK KRRNQPGNPN  60
PDAEVIALSP KTLMTTNRFI CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK SNKEVKRKVY  120
LCPEPTCVHH DPSRALGDLT GIKKHYYRKH GEKKWKCDKC SKRYAVQSDW KAHSKTCGTK  180
EYRCDCGTIF SRRDSFITHR AFCDALMQET ARNPTVSFTA MAAAGGGSTG RHGFYGPRLG  240
GGSLSQSIGN SSNSSFTPVG SYNLNRTFSD NNMQRLGVGT DRADKFGGFM SHVPNPNSSA  300
FFMQCPSSQG LMNPNDPSFM NQHGLLQLDP TNLHINPNGN NNNNHNDFFN LGFFQENNAK  360
NSETNVIYSD GLVNHQHHHQ QDNLNTSSNM SATALLQKAT QIGSTVMATA NNNDPSALFR  420
GLVSSSSSTA VDVDKFGGQT ENDNDHLQGL MNSLAGGGGG IFDAHFGDNP NICGSDKLTL  480
DLLGVGGMMR SVTGGGGGRG RGSFDAEIKF SQPNHPFRRP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-34	151	217	3	69	Zinc finger protein JACKDAW
5b3h_F	4e-34	151	217	3	69	Zinc finger protein JACKDAW
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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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_010527848.1

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

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_010527848.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Refseq	XP_010527849.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Swissprot	Q8GYC1	0.0	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	R0HIV8	0.0	R0HIV8_9BRAS; Uncharacterized protein
STRING	XP_010527848.1	0.0	(Tarenaya hassleriana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3678	17	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	1e-173	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]