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

augustus_masked-scaffold02781-abinit-gene-0.0-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea

Family

C3H

Protein Properties

Length: 386aa MW: 43558.6 Da PI: 7.7728

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
augustus_masked-scaffold02781-abinit-gene-0.0-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	27.5	5.5e-09	127	147	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C+ ++r G C++Gd+C FaHg augustus_masked-scaffold02781-abinit-gene-0.0-mRNA-1 127 VCPEYRR-GSCNRGDSCEFAHG 147 7****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	7.26E-5	121	151	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.3E-6	122	148	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.807	123	149	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.6E-6	126	149	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.6E-7	127	147	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.4	157	180	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.287	157	181	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010187	Biological Process	negative regulation of seed germination
GO:0005634	Cellular Component	nucleus
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 386 aa Download sequence Send to blast
MSSICAEQQH KLHTSHQPIS SKNSLKTIDI PPRKLLSRRL ISEPDMFFSD DTLFQKFLSN 60 NNVGGDNLDG SDSDSDPYSS DHFRMYEFKV RRCTRSRSHD WTDCPFAHPG EKARRRDPRR 120 FHYSGQVCPE YRRGSCNRGD SCEFAHGVFE CWLHPARYRT EACKDGKNCK RKVCFFAHTP 180 RQLRVLPLNS HHSSPELACK KKLTSNHCCL FCHCANSSPT STLLGMSHLS PPLSPPLSPV 240 KPRSINGLSP ISRYADRFVS SESSGGMHAQ MNNHGVQSYK DALTELMSSL EGMNFSETSS 300 PLSAKNPNVP WLDVSFNNIE DQQQFILSPS TPNPPSFRSA NFFSGDCSSK SFADETNNNN 360 EEYNKVNENG WSCSDPDLGW VNELLM

Sequence ? help Back to Top

Protein Sequence Length: 386 aa Download sequence Send to blast

MSSICAEQQH KLHTSHQPIS SKNSLKTIDI PPRKLLSRRL ISEPDMFFSD DTLFQKFLSN  60
NNVGGDNLDG SDSDSDPYSS DHFRMYEFKV RRCTRSRSHD WTDCPFAHPG EKARRRDPRR  120
FHYSGQVCPE YRRGSCNRGD SCEFAHGVFE CWLHPARYRT EACKDGKNCK RKVCFFAHTP  180
RQLRVLPLNS HHSSPELACK KKLTSNHCCL FCHCANSSPT STLLGMSHLS PPLSPPLSPV  240
KPRSINGLSP ISRYADRFVS SESSGGMHAQ MNNHGVQSYK DALTELMSSL EGMNFSETSS  300
PLSAKNPNVP WLDVSFNNIE DQQQFILSPS TPNPPSFRSA NFFSGDCSSK SFADETNNNN  360
EEYNKVNENG WSCSDPDLGW VNELLM

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269\|PubMed:18487351}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023889635.1	0.0	LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 2-like
Swissprot	Q9ZWA1	6e-95	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A2N9G7S1	0.0	A0A2N9G7S1_FAGSY; Uncharacterized protein
STRING	POPTR_0017s04510.1	1e-138	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6261	26	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03790.1	5e-85	C3H family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Chang G, et al. AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238 [PMID:29723526]