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

XP_009132962.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

C3H

Protein Properties

Length: 522aa MW: 56848 Da PI: 6.2533

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009132962.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.3	8.3e-06	88	108	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ff + G+C G +C+F H+ XP_009132962.1 88 PCKFFGQ-GWCDNGISCRFLHV 108 7****.***********7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.751	83	110	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.62E-5	83	107	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.1E-4	88	110	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 522 aa Download sequence Send to blast
MSDSDMDIDD DDVQVHVQRT IAGDSGLLLA KPSDSQSRND VKKHLDENSG KNNTMLGEAK 60 DMLLSRFPAP APSFPLVNGP EQKRASLPCK FFGQGWCDNG ISCRFLHVKE NMNGTSQQQW 120 GNHMAGTSGI QSVEGENGVA SLVNPSGGHE ILFVPSLGNM EMERGSLPKG GAVFTEDRPV 180 FVNSTSSFPL KSSFVQEHGA SITSYGQTDM GSSAPAWTGS LFSSTPMNQY ASKLGNCENM 240 NDKNGSGSLP MVQAISVSSV QDAEGDRTSN NKKVYSHDWE PSEPFRASFT IPPYILPSSD 300 ALYDPFTDIE NPQDRSLTAP LSSKGRYAQK KSSQQKDDES ASDNKNSSCS NNQYQESMAT 360 KNLEAHGVVE GVATSVVDQN DETTPSKEVS AENRSVLKRS KPAGHGSWRR SDGSSHQKVL 420 KSDERDGEAR SDAGTKAMRQ FRTAVVETIK EMVKPLWREG RLTKEVHNMV VKRASEKIVS 480 AAVQSHQVPT DSAFVDQYLS MSATKIVKLV EGYVEKYGKP KP

Sequence ? help Back to Top

Protein Sequence Length: 522 aa Download sequence Send to blast

MSDSDMDIDD DDVQVHVQRT IAGDSGLLLA KPSDSQSRND VKKHLDENSG KNNTMLGEAK  60
DMLLSRFPAP APSFPLVNGP EQKRASLPCK FFGQGWCDNG ISCRFLHVKE NMNGTSQQQW  120
GNHMAGTSGI QSVEGENGVA SLVNPSGGHE ILFVPSLGNM EMERGSLPKG GAVFTEDRPV  180
FVNSTSSFPL KSSFVQEHGA SITSYGQTDM GSSAPAWTGS LFSSTPMNQY ASKLGNCENM  240
NDKNGSGSLP MVQAISVSSV QDAEGDRTSN NKKVYSHDWE PSEPFRASFT IPPYILPSSD  300
ALYDPFTDIE NPQDRSLTAP LSSKGRYAQK KSSQQKDDES ASDNKNSSCS NNQYQESMAT  360
KNLEAHGVVE GVATSVVDQN DETTPSKEVS AENRSVLKRS KPAGHGSWRR SDGSSHQKVL  420
KSDERDGEAR SDAGTKAMRQ FRTAVVETIK EMVKPLWREG RLTKEVHNMV VKRASEKIVS  480
AAVQSHQVPT DSAFVDQYLS MSATKIVKLV EGYVEKYGKP KP

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in root and shoot apices and vasculature. {ECO:0000269\|PubMed:16291783}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator involved in the FRIGIDA-mediated vernalization pathway, but not in the autonomous flowering pathway. Acts cooperatively with FRI (FRIGIDA) or FRL1 (FRIGIDA-LIKE 1) to promote FLC (FLOWERING LOCUS C) expression. Required for the stabilization of the FRI-C complex. {ECO:0000269\|PubMed:16291783, ECO:0000269\|PubMed:21282526}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009132962.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC241146	0.0	AC241146.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH072P15, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009132962.2	0.0	PREDICTED: protein FRIGIDA-ESSENTIAL 1-like
Swissprot	Q84VG7	0.0	FES1_ARATH; Protein FRIGIDA-ESSENTIAL 1
TrEMBL	M4E2F7	0.0	M4E2F7_BRARP; Uncharacterized protein
STRING	Bra022958.1-P	0.0	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	0.0	C3H family protein

Publications ? help Back to Top
Ding L,Kim SY,Michaels SD FLOWERING LOCUS C EXPRESSOR family proteins regulate FLOWERING LOCUS C expression in both winter-annual and rapid-cycling Arabidopsis. Plant Physiol., 2013. 163(1): p. 243-52 [PMID:23899645]