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

Cagra.0430s0043.2.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 175aa MW: 17827 Da PI: 10.0439

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.0430s0043.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	37.5	3.9e-12	140	165	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 ykt++C +f++ G C +GdrC+FaHg+ Cagra.0430s0043.2.p 140 YKTKICERFSK-GNCTFGDRCHFAHGE 165 9********.***********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54791	1.42E-15	27	108	IPR004088	K Homology domain, type 1
Gene3D	G3DSA:3.30.1370.10	2.0E-16	37	106	IPR004088	K Homology domain, type 1
SMART	SM00322	1.8E-11	37	107	IPR004087	K Homology domain
PROSITE profile	PS50084	14.55	38	102	IPR004088	K Homology domain, type 1
CDD	cd00105	8.11E-13	40	102	No hit	No description
Pfam	PF00013	2.4E-12	40	104	IPR004088	K Homology domain, type 1
Gene3D	G3DSA:4.10.1000.10	1.3E-16	134	169	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	17.215	139	166	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.76E-9	139	169	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.2E-8	139	165	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.2E-9	140	165	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 175 aa Download sequence Send to blast
MTNMGPPMPQ VSRNMGGGGR FSGRGESGPG HVSSFGASAT AKISVDASLA GAIIGKGGVS 60 SKQICRQTGA KLSIQDHERD PNLKNIELEG TFEQINEASA MVRELIGRLN SAAKKPPGGG 120 GGGGGGGMGS EGKPHPGSNY KTKICERFSK GNCTFGDRCH FAHGEAELRR SGIA*

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00113	ampDAP	Transfer from AT3G12130	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.0430s0043.2.p

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	AC069473	1e-179	AC069473.4 Arabidopsis thaliana chromosome 3 BAC T21B14 genomic sequence, complete sequence.
GenBank	AK227373	1e-179	AK227373.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-04-J23.
GenBank	AP002063	1e-179	AP002063.2 Arabidopsis thaliana genomic DNA, chromosome 3, BAC clone: T23B7.
GenBank	AY085746	1e-179	AY085746.1 Arabidopsis thaliana clone 17632 mRNA, complete sequence.
GenBank	BT025032	1e-179	BT025032.1 Arabidopsis thaliana At3g12130 mRNA, complete cds.
GenBank	CP002686	1e-179	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006298415.1	1e-123	zinc finger CCCH domain-containing protein 36 isoform X2
Swissprot	Q9C7C3	2e-97	C3H36_ARATH; Zinc finger CCCH domain-containing protein 36
TrEMBL	R0I4P5	1e-121	R0I4P5_9BRAS; Uncharacterized protein
STRING	Cagra.0430s0043.1.p	1e-121	(Capsella grandiflora)
STRING	XP_006298416.1	1e-121	(Capsella rubella)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12130.1	4e-76	C3H family protein

Link Out ? help Back to Top
Phytozome	Cagra.0430s0043.2.p

Publications ? help Back to Top
Yan Z,Jia J,Yan X,Shi H,Han Y Arabidopsis KHZ1 and KHZ2, two novel non-tandem CCCH zinc-finger and K-homolog domain proteins, have redundant roles in the regulation of flowering and senescence. Plant Mol. Biol., 2017. 95(6): p. 549-565 [PMID:29076025]