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

evm_27.model.AmTr_v1.0_scaffold00003.182

Common Name

AMTR_s00003p00197710

Organism

Amborella trichopoda

Taxonomic ID

13333

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella

Family

C3H

Protein Properties

Length: 120aa MW: 13399.2 Da PI: 9.7133

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00003.182	genome	TAGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	33.9	5.4e-11	58	77	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C++f+rtG+C+yGd Ck++H evm_27.model.AmTr_v1.0_scaffold00003.182 58 CNHFMRTGFCQYGDACKYIH 77 ******************** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	8.7E-5	3	38	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	1.61E-14	4	54	No hit	No description
Pfam	PF06220	2.8E-10	5	38	IPR013085	Zinc finger, U1-C type
PROSITE profile	PS50103	14.108	52	80	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.4E-4	54	79	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.06E-7	57	79	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.0E-8	58	77	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.3E-7	58	78	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 120 aa Download sequence Send to blast
MPLGKYYCDY CDKPFQDTPA ARKRHLEGLH HQRAKALWYA SFKEPHRIQS DGLGRGFCNH 60 FMRTGFCQYG DACKYIHTKP VMQFAGPLPV GNPGSNMSTT FQSSATFGNQ SMRGSFPGK*

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_020521151.1	2e-85	zinc finger CCCH domain-containing protein 3 isoform X5
Swissprot	Q0JP11	5e-27	C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBL	W1P8F0	4e-85	W1P8F0_AMBTC; Uncharacterized protein
STRING	ERN03260	6e-86	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP8539	12	13

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G26749.1	1e-25	C3H family protein

Link Out ? help Back to Top
Phytozome	evm_27.model.AmTr_v1.0_scaffold00003.182

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Amborella Genome Project The Amborella genome and the evolution of flowering plants. Science, 2013. 342(6165): p. 1241089 [PMID:24357323]