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

Tp57577_TGAC_v2_mRNA2483

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

C2H2

Protein Properties

Length: 617aa MW: 65120.7 Da PI: 10.2459

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA2483	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.2e-05	126	148	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Tp57577_TGAC_v2_mRNA2483 126 FICEVCNKGFQREQNLQLHRRGH 148 89*******************88 PP
2	zf-C2H2	11.8	0.00075	202	224	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Tp57577_TGAC_v2_mRNA2483 202 WKCDKCSKKYAVQSDWKAHSKTC 224 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	6.9E-6	125	148	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.41E-7	125	148	No hit	No description
PROSITE profile	PS50157	10.99	126	148	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	126	148	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	3.0E-5	126	148	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	128	148	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	167	197	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.3E-4	190	223	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.41E-7	197	222	No hit	No description
SMART	SM00355	150	202	222	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: 617 aa Download sequence Send to blast
MAASSSSTSL FGFRVEDPNP MKQQHSLPPS SFATPAAAAP SQKKKRNQPR KPNMAASSSS 60 ASLFGFRDED PNPMKQQHSL PPSSSAAPAV AAAPSQKKKR NQPGTPNPDA EVIALSPKTL 120 MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKTTK EPKRKVYLCP EPTCVHHDPS 180 RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 240 DSFITHRAFC DALAQEGPRQ PPITLPGAIG SHLYGTTSNT MALNLSHVSP QMHHQQDHHS 300 NSATDILRLG ASANRTGQFD HHNILQPTFR PNNSFFSNNN IHDPNQNYVP DQGLMMQQNN 360 NSNNNNLFNI PNFLSSNNNS ATTNTNSGNN SFSEHLNVNN NEGTNFFTGS GGTTSAPSSL 420 FSNFPQGGAN SNINAAAATS IASMSATALL QKAAQMGATS SNGNGTTATS LLKSFGNNTG 480 SNSASSGGGA EHNRQLMSGG GGSGNYGFGG GNEQSNLHDL MNSFAATGNS SIFETGGGGV 540 GLGSGGGDSR QMTRDFLGVG QIVRSMSGAV GGQREHAAAF NLPGSLEGDQ RNINAAAAFG 600 RGGGGGGGGG AGGNFQ*

Sequence ? help Back to Top

Protein Sequence Length: 617 aa Download sequence Send to blast

MAASSSSTSL FGFRVEDPNP MKQQHSLPPS SFATPAAAAP SQKKKRNQPR KPNMAASSSS  60
ASLFGFRDED PNPMKQQHSL PPSSSAAPAV AAAPSQKKKR NQPGTPNPDA EVIALSPKTL  120
MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKTTK EPKRKVYLCP EPTCVHHDPS  180
RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  240
DSFITHRAFC DALAQEGPRQ PPITLPGAIG SHLYGTTSNT MALNLSHVSP QMHHQQDHHS  300
NSATDILRLG ASANRTGQFD HHNILQPTFR PNNSFFSNNN IHDPNQNYVP DQGLMMQQNN  360
NSNNNNLFNI PNFLSSNNNS ATTNTNSGNN SFSEHLNVNN NEGTNFFTGS GGTTSAPSSL  420
FSNFPQGGAN SNINAAAATS IASMSATALL QKAAQMGATS SNGNGTTATS LLKSFGNNTG  480
SNSASSGGGA EHNRQLMSGG GGSGNYGFGG GNEQSNLHDL MNSFAATGNS SIFETGGGGV  540
GLGSGGGDSR QMTRDFLGVG QIVRSMSGAV GGQREHAAAF NLPGSLEGDQ RNINAAAAFG  600
RGGGGGGGGG AGGNFQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-34	198	264	3	69	Zinc finger protein JACKDAW
5b3h_F	4e-34	198	264	3	69	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp57577_TGAC_v2_mRNA2483

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC160454	1e-148	AC160454.31 Glycine max cultivar Williams 82 clone gmw1-15k6, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013470290.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_024627898.1	0.0	protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-133	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A072VSD2	0.0	A0A072VSD2_MEDTR; C2H2 zinc finger protein, putative
STRING	XP_004497164.1	0.0	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	1e-101	indeterminate(ID)-domain 4

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA2483

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]