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

Rsa1.0_00920.1_g00018.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 323aa MW: 35523.7 Da PI: 8.019

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00920.1_g00018.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	47.2	3.6e-15	237	261	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ktelC+ +++tGtC+yGd C+FaHg Rsa1.0_00920.1_g00018.1 237 KTELCNKWQETGTCPYGDHCQFAHG 261 9***********************8 PP
2	zf-CCCH	21.2	5.1e-07	274	299	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ykte Cr +++ +C+yG rC+F H+ Rsa1.0_00920.1_g00018.1 274 YKTEVCRMVLAGDICPYGHRCHFRHS 299 9********55********998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	2.1E-18	230	268	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.32E-11	232	267	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.9E-9	235	262	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.23	235	263	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.3E-12	237	261	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.9E-13	269	302	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.01E-9	269	304	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.272	273	301	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.8E-5	273	300	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 323 aa Download sequence Send to blast
MENETAPFTY SVITSHGEPS VGGGGGGVVN QIYRTSSAMQ QQRRQDMVNR EALCYTRLHE 60 ASLEAEVLRL ENTELRSMNL HLKRELDELI RSSVQNSRHR FGYDRVPLRM LSNLSIGDRG 120 GAEADDDAEN RNRAVSRDDV SEESPTSVIA NEDLNRSSLP KSISVRSSGY SKASQGGGGC 180 GGGGSAAAQC GKSRGVVAKP GACGQQLSTT QRVYVRGGKK EEEEEIEVEV YNQGMTKTEL 240 CNKWQETGTC PYGDHCQFAH GIKELRPVIR HPRYKTEVCR MVLAGDICPY GHRCHFRHSL 300 SEQEKLVASA GCKPNNKSCK LVK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	3e-22	237	302	5	70	Butyrate response factor 2
Search in ModeBase

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00383	ampDAP	Transfer from AT1G68200	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00920.1_g00018.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189489	1e-142	AC189489.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB084K02, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018453373.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 15
Swissprot	Q9C9F5	1e-137	C3H15_ARATH; Zinc finger CCCH domain-containing protein 15
TrEMBL	A0A3P6BWL4	1e-177	A0A3P6BWL4_BRACM; Uncharacterized protein
TrEMBL	M4CJA4	1e-177	M4CJA4_BRARP; Uncharacterized protein
STRING	Bra004288.1-P	1e-178	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7287	23	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68200.1	1e-124	C3H family protein