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

Cc05_g07550

Common Name

GSCOC_T00042287001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

C3H

Protein Properties

Length: 513aa MW: 57677.8 Da PI: 7.8774

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc05_g07550	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.9	3.4e-08	257	277	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C+ f+r G C++Gd+C +aHg Cc05_g07550 257 VCSEFRR-GNCSRGDNCEYAHG 277 7****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	2.7E-6	252	278	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.375	253	279	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.48E-5	254	277	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.3E-5	256	279	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.3E-6	257	277	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.6	287	310	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.484	287	311	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: 513 aa Download sequence Send to blast
MTFSLEAQQE GLLHAIVLCR AATYLTLHAN SLYYAATHHS AHPSHHPRHS FTPSLSPLTF 60 SLNYEYINPF FNLYVFVHPP APSLSHIFSP FSTLLFHVPH PLERNEKSFT VFLNPMSLST 120 FSSSSDMTSV FADQQQQHKF HQLSYLNKKS PREIEIPPRK LLSRRAAASG SMHLDSGDMF 180 MDSPKAEEAL LQKFLPYNNI DDDDADPYSS DHFRMYEFKV RKCTRSRSHD WTDCPFAHPG 240 EKARRRDPRR YHYSGTVCSE FRRGNCSRGD NCEYAHGVFE CWLHPSRYRT EACKDGKNCK 300 RKVCFFAHSP RQLRVLPANC HETASSPVNS PVEKQQQHHR NVNHCCMYCH SVAASPTSTL 360 MGMSHLSPPL SPPLSPPISP AKAAQFSPVS RYKDHFASVE PCGMAQFGSG GMGGMSYKDA 420 LAELMSSIEA MRVNESSSRA AASNNGISLP WIDVNFNGDD QQQFILSPST PSPGTSKFLS 480 RNFPSRNFIE ENKFTENGLA GPDLEWVNDL LT*

Sequence ? help Back to Top

Protein Sequence Length: 513 aa Download sequence Send to blast

MTFSLEAQQE GLLHAIVLCR AATYLTLHAN SLYYAATHHS AHPSHHPRHS FTPSLSPLTF  60
SLNYEYINPF FNLYVFVHPP APSLSHIFSP FSTLLFHVPH PLERNEKSFT VFLNPMSLST  120
FSSSSDMTSV FADQQQQHKF HQLSYLNKKS PREIEIPPRK LLSRRAAASG SMHLDSGDMF  180
MDSPKAEEAL LQKFLPYNNI DDDDADPYSS DHFRMYEFKV RKCTRSRSHD WTDCPFAHPG  240
EKARRRDPRR YHYSGTVCSE FRRGNCSRGD NCEYAHGVFE CWLHPSRYRT EACKDGKNCK  300
RKVCFFAHSP RQLRVLPANC HETASSPVNS PVEKQQQHHR NVNHCCMYCH SVAASPTSTL  360
MGMSHLSPPL SPPLSPPISP AKAAQFSPVS RYKDHFASVE PCGMAQFGSG GMGGMSYKDA  420
LAELMSSIEA MRVNESSSRA AASNNGISLP WIDVNFNGDD QQQFILSPST PSPGTSKFLS  480
RNFPSRNFIE ENKFTENGLA GPDLEWVNDL LT*

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_027062383.1	0.0	zinc finger CCCH domain-containing protein 2-like
Swissprot	Q9ZWA1	2e-86	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A068V4M8	0.0	A0A068V4M8_COFCA; Uncharacterized protein
STRING	XP_009789499.1	1e-161	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA10595	21	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03790.1	4e-79	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]