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

Cc11_g03360

Common Name

GSCOC_T00025424001

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

C2H2

Protein Properties

Length: 436aa MW: 47400.8 Da PI: 9.4514

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc11_g03360	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.7	9.9e-06	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H Cc11_g03360 6 FVCEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.7E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.1E-7	5	28	No hit	No description
PROSITE profile	PS50157	11.094	6	28	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.7E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0041	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	180	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.1E-7	77	102	No hit	No description
SMART	SM00355	120	82	102	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: 436 aa Download sequence Send to blast
MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKTTK EVKRKVYLCP EPTCVHHHPS 60 RALGDLTGIK KHYSRKHGEK KYKCNKCAKK YAVHSDWKAH TKTCGTREYK CDCGTLFSRR 120 DSFITHRAFC DALAQESARN PPPLGIGASQ LFGSSSNSST MSMDMSQIGS QIARSTGVTG 180 QFDNLIGSSM GSALRPSKSM ASSSYFLPES DQEDYHLENH SQHEFFSNKT LHHGLMQFSD 240 LQNNSSASAG SSFFNLSIFP SSSNAGSTLF SDHLVRQHLS SASIPSHYST SIQSNNISPY 300 MSATALLQKA AQLSSTTSNS TGAFLKSFTS GASSSGTKPD PDPISSTQFG GIFGDYNTGN 360 HIYEFMSSIT GPRFGGADQG LTRDFLGVGP AGELVRSMSG GGFGQREHGV EIKPLDSERK 420 TAPESPPFGG GVNFR*

Sequence ? help Back to Top

Protein Sequence Length: 436 aa Download sequence Send to blast

MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKTTK EVKRKVYLCP EPTCVHHHPS  60
RALGDLTGIK KHYSRKHGEK KYKCNKCAKK YAVHSDWKAH TKTCGTREYK CDCGTLFSRR  120
DSFITHRAFC DALAQESARN PPPLGIGASQ LFGSSSNSST MSMDMSQIGS QIARSTGVTG  180
QFDNLIGSSM GSALRPSKSM ASSSYFLPES DQEDYHLENH SQHEFFSNKT LHHGLMQFSD  240
LQNNSSASAG SSFFNLSIFP SSSNAGSTLF SDHLVRQHLS SASIPSHYST SIQSNNISPY  300
MSATALLQKA AQLSSTTSNS TGAFLKSFTS GASSSGTKPD PDPISSTQFG GIFGDYNTGN  360
HIYEFMSSIT GPRFGGADQG LTRDFLGVGP AGELVRSMSG GGFGQREHGV EIKPLDSERK  420
TAPESPPFGG GVNFR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-33	78	139	3	64	Zinc finger protein JACKDAW
5b3h_F	5e-33	78	139	3	64	Zinc finger protein JACKDAW
Search in ModeBase

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

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_027066724.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_027096810.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-109	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A068UHZ8	0.0	A0A068UHZ8_COFCA; Uncharacterized protein
STRING	VIT_01s0010g02100.t01	1e-152	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.2	4e-94	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]