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

Cucsa.263980.2

Common Name

Csa_4G507380, LOC101216254

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

C3H

Protein Properties

Length: 237aa MW: 24104.3 Da PI: 9.1556

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.263980.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	27.9	4e-09	33	58	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 kt+ C+ + Ck+Gd+C+FaHg+ Cucsa.263980.2 33 KTRMCNKYNTAEGCKFGDKCNFAHGE 58 89**********************96 PP
2	zf-CCCH	38.6	1.8e-12	203	227	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ykt+lC++fa+ G C +G+rC+FaHg Cucsa.263980.2 203 YKTKLCDNFAK-GSCTFGERCHFAHG 227 9********.***********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	3.0E-14	29	62	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-8	30	62	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.041	31	58	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.619	31	59	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.9E-5	33	58	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF54791	2.34E-16	98	179	IPR004088	K Homology domain, type 1
Gene3D	G3DSA:3.30.1370.10	4.4E-17	108	177	IPR004088	K Homology domain, type 1
SMART	SM00322	7.3E-13	108	178	IPR004087	K Homology domain
PROSITE profile	PS50084	14.739	109	173	IPR004088	K Homology domain, type 1
CDD	cd00105	1.66E-15	111	173	No hit	No description
Pfam	PF00013	3.8E-12	111	175	IPR004088	K Homology domain, type 1
Gene3D	G3DSA:4.10.1000.10	7.0E-17	198	233	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.63E-9	201	232	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.0E-8	202	228	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.558	202	229	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.4E-10	203	227	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: 237 aa Download sequence Send to blast
MMNLAPVGAQ PSRNIAAPPS VTNGGPSAPS QVKTRMCNKY NTAEGCKFGD KCNFAHGEWE 60 LGRPNPPSHD NPRAMGGGGG GGGGVHMVGR MGGRMDLPPP GPAASFGASA TAKISIDASL 120 AGAIIGKGGI NSKQICRQTG AKLSIRDHES DPNLRNIELE GTFEQINEAS AMVRELIITV 180 SMAGPGKASG GMGGGPAPTG SNYKTKLCDN FAKGSCTFGE RCHFAHGAAE LRKSGV*

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	LN681882	0.0	LN681882.1 Cucumis melo genomic scaffold, anchoredscaffold00010.
GenBank	LN713262	0.0	LN713262.1 Cucumis melo genomic chromosome, chr_8.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004146386.1	1e-171	PREDICTED: zinc finger CCCH domain-containing protein 31-like
Swissprot	Q69XQ3	8e-78	C3H44_ORYSJ; Zinc finger CCCH domain-containing protein 44
TrEMBL	A0A0A0KZ79	1e-170	A0A0A0KZ79_CUCSA; Uncharacterized protein
STRING	XP_004146386.1	1e-171	(Cucumis sativus)
STRING	XP_004156007.1	1e-171	(Cucumis sativus)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06770.1	3e-54	C3H family protein

Link Out ? help Back to Top
Phytozome	Cucsa.263980.2
Entrez Gene	101216254

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402]