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

Cla002235

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

C3H

Protein Properties

Length: 378aa MW: 41853.7 Da PI: 7.729

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla002235	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17	1e-05	137	157	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C+ f+r G C +Gd C FaHg Cla002235 137 MCPEFRR-GGCGRGDGCEFAHG 157 6****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.054	132	158	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.582	133	159	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.7E-5	136	159	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.4E-4	164	195	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.484	167	191	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.6	167	190	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: 378 aa Download sequence Send to blast
MSSVCAEQQK FQFQFQFPSS ASAASSSCSS WFLKDINVPP RKLLAAVRRE NGEMCSDSPR 60 FSFAVESLLQ KFLPFNGEDE AEEDGDPYSS DHFRMYEFKV RRCTRSRSHD WTDCPFAHPG 120 EKARRRDPRR FHYSGTMCPE FRRGGCGRGD GCEFAHGVFE CWLHPARYRT EACKDGKNCK 180 RKVCFFAHSP RELRLLPPVS NFQGGSCSSP NKRNSGLRSA TSGSNHCCLF CHCGGAATSS 240 PTSTLFGMSH LSPPHSPPLS PGKPRSSING FSPISRYNPD QSKLNGVLSY KDALTELMSS 300 IESMNIDDAN ATLAAAATAT PRQTIPWIDV SSLNSEDQLQ FDLSPSTPNV SVENKGNPDN 360 GWASSSDPDL RWVNDLLM

Sequence ? help Back to Top

Protein Sequence Length: 378 aa Download sequence Send to blast

MSSVCAEQQK FQFQFQFPSS ASAASSSCSS WFLKDINVPP RKLLAAVRRE NGEMCSDSPR  60
FSFAVESLLQ KFLPFNGEDE AEEDGDPYSS DHFRMYEFKV RRCTRSRSHD WTDCPFAHPG  120
EKARRRDPRR FHYSGTMCPE FRRGGCGRGD GCEFAHGVFE CWLHPARYRT EACKDGKNCK  180
RKVCFFAHSP RELRLLPPVS NFQGGSCSSP NKRNSGLRSA TSGSNHCCLF CHCGGAATSS  240
PTSTLFGMSH LSPPHSPPLS PGKPRSSING FSPISRYNPD QSKLNGVLSY KDALTELMSS  300
IESMNIDDAN ATLAAAATAT PRQTIPWIDV SSLNSEDQLQ FDLSPSTPNV SVENKGNPDN  360
GWASSSDPDL RWVNDLLM

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681792	0.0	LN681792.1 Cucumis melo genomic scaffold, anchoredscaffold00034.
GenBank	LN713255	0.0	LN713255.1 Cucumis melo genomic chromosome, chr_1.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022930620.1	0.0	zinc finger CCCH domain-containing protein 2-like
Swissprot	Q9ZWA1	3e-84	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A0A0K2E3	1e-175	A0A0A0K2E3_CUCSA; Uncharacterized protein
STRING	XP_004136841.1	1e-175	(Cucumis sativus)
STRING	XP_004155466.1	1e-175	(Cucumis sativus)

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	1e-75	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]