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

Ciclev10013897m

Common Name

CICLE_v10013897mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

C3H

Protein Properties

Length: 302aa MW: 34628.9 Da PI: 6.7771

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10013897m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	47.3	3.2e-15	227	252	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +ktelC+ +++tG C+yGd C+FaH+ Ciclev10013897m 227 WKTELCNKWQETGSCPYGDYCQFAHD 252 8************************7 PP
2	zf-CCCH	24.2	5.9e-08	265	290	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ykte Cr + +GtC+yG rC+F H+ Ciclev10013897m 265 YKTEVCRMVLSGGTCPYGHRCHFRHS 290 9**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	5.2E-18	221	259	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.77E-11	223	258	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.2E-8	226	253	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.99	226	254	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-12	227	252	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.27E-9	260	295	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.0E-14	260	293	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.6E-6	264	291	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.361	264	292	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.4E-6	265	290	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051511	Biological Process	negative regulation of unidimensional cell growth
GO:1901347	Biological Process	negative regulation of secondary cell wall biogenesis
GO:0003729	Molecular Function	mRNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 302 aa Download sequence Send to blast
MEKEIRDESS PSDAKTSMTT ATATTSSSLT SDFDFDFDFD FDFDVDFSSM YNSVFPPRSS 60 LSPSLITDDR HRIATEHRLQ QARLILEYQQ LCDHYDLCFS RLQAITRELE TLRQQNADLR 120 LANARLLKII TGSFHRMTED IPPAFAPNNV MEPNRLEKRI VLERESFPKS ISVRSSGCTI 180 KPKQANASSG TSRPRAQRVY VPPGDNKREE AEEAKAVELE VYNQGMWKTE LCNKWQETGS 240 CPYGDYCQFA HDFTELRPVI RHPKYKTEVC RMVLSGGTCP YGHRCHFRHS LTEQERIPVP 300 R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	3e-22	227	293	4	70	Butyrate response factor 2
Search in ModeBase

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_006430713.1	0.0	zinc finger CCCH domain-containing protein 14
Swissprot	Q9C9N3	2e-76	C3H14_ARATH; Zinc finger CCCH domain-containing protein 14
TrEMBL	V4S8X0	0.0	V4S8X0_9ROSI; Uncharacterized protein
STRING	XP_006430713.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10623	25	33

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66810.1	3e-64	C3H family protein

Link Out ? help Back to Top
Phytozome	Ciclev10013897m
Entrez Gene	18040098