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

Gorai.005G129300.1

Common Name

B456_005G129300

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C3H

Protein Properties

Length: 355aa MW: 39948.4 Da PI: 7.1563

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.005G129300.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38	2.7e-12	200	225	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd+CkF+H+ Gorai.005G129300.1 200 YQPDICKDYKETGYCGYGDSCKFMHD 225 66789********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	2.22E-9	198	230	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-7	199	226	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.878	199	227	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.8E-12	200	230	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.9E-10	200	225	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.30.40.10	1.4E-9	269	331	IPR013083	Zinc finger, RING/FYVE/PHD-type
SuperFamily	SSF57850	1.22E-7	273	313	No hit	No description
PROSITE profile	PS50089	9.701	278	328	IPR001841	Zinc finger, RING-type
Pfam	PF00097	8.7E-5	278	327	IPR018957	Zinc finger, C3HC4 RING-type
SMART	SM00184	9.8E-4	278	327	IPR001841	Zinc finger, RING-type
CDD	cd00162	9.92E-7	278	331	No hit	No description
PROSITE pattern	PS00518	0	293	302	IPR017907	Zinc finger, RING-type, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 355 aa Download sequence Send to blast
MADSSELQDP GKELRQSETE PQQSEQVCNF FRKPTKGKNI RKRTINEDED EDSRNGTSLL 60 HNQKKASKPD NKLYFSTGSS KSATATESST ESHKLVLQFE SSKEIQVQND SGATAILETE 120 TEFTKDARAI REKVLKRAEE ALKGKSTSSG GEKLYTGMHG YVDHKAGFRR EQTVASEKAG 180 GSHGPLRASA HIRVSARFDY QPDICKDYKE TGYCGYGDSC KFMHDRGDYK SGWQLEKEWE 240 EAEKARKRNL ALGEGDDDDE AGVVQSDDDD DDTLPFACFI CRQPFVDPVV TKCKHYFCEH 300 CALKQRKQLH FGCLFQHHAK NKKCFVCNQP TLGIFNAAHE IRRKMAEEGK LKGH*

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MADSSELQDP GKELRQSETE PQQSEQVCNF FRKPTKGKNI RKRTINEDED EDSRNGTSLL  60
HNQKKASKPD NKLYFSTGSS KSATATESST ESHKLVLQFE SSKEIQVQND SGATAILETE  120
TEFTKDARAI REKVLKRAEE ALKGKSTSSG GEKLYTGMHG YVDHKAGFRR EQTVASEKAG  180
GSHGPLRASA HIRVSARFDY QPDICKDYKE TGYCGYGDSC KFMHDRGDYK SGWQLEKEWE  240
EAEKARKRNL ALGEGDDDDE AGVVQSDDDD DDTLPFACFI CRQPFVDPVV TKCKHYFCEH  300
CALKQRKQLH FGCLFQHHAK NKKCFVCNQP TLGIFNAAHE IRRKMAEEGK LKGH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5z56_M	3e-61	25	345	12	317	RING finger protein 113A
5z58_M	3e-61	25	345	12	317	RING finger protein 113A
6ff4_t	3e-61	25	345	12	317	RING finger protein 113A
6ff7_t	3e-61	25	345	12	317	RING finger protein 113A
Search in ModeBase

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	HQ527634	9e-93	HQ527634.1 Gossypium herbaceum clone NBRI_E_EYT27PB03GMUBB simple sequence repeat marker, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012478476.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 1 isoform X1
Refseq	XP_012478477.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 1 isoform X1
Refseq	XP_012478478.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 1 isoform X1
Swissprot	Q8GX84	1e-171	C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBL	A0A0D2SFW8	0.0	A0A0D2SFW8_GOSRA; Uncharacterized protein
STRING	Gorai.005G129300.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11099	26	34

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01350.1	1e-152	C3H family protein

Link Out ? help Back to Top
Phytozome	Gorai.005G129300.1

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886]