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.060530.1

Common Name

Csa_6G382870, LOC101221334

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: 301aa MW: 33921.6 Da PI: 6.1295

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.060530.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	37.8	3.1e-12	186	211	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd CkF+H+ Cucsa.060530.1 186 YQPDICKDYKETGYCGYGDACKFMHD 211 67789********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.01E-9	184	216	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.577	185	213	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.8E-7	185	212	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.2E-10	186	211	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.5E-12	186	216	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.30.40.10	2.1E-10	248	291	IPR013083	Zinc finger, RING/FYVE/PHD-type
SuperFamily	SSF57850	2.12E-10	262	291	No hit	No description
PROSITE profile	PS50089	8.535	263	286	IPR001841	Zinc finger, RING-type
CDD	cd00162	4.48E-6	263	289	No hit	No description
Pfam	PF00097	1.1E-5	263	291	IPR018957	Zinc finger, C3HC4 RING-type

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: 301 aa Download sequence Send to blast
MTDTGDTQPS EQVCSFFRKP TKNKNIRKRT VDEDEEEDSK AETSFLLNQK KAPKTESKLY 60 FSSGPSKNSS SNESNVEPNK PIFQFESSKE IQVHHDSRAT ATLETETDFS RDARAIRERV 120 LKQAEEALKG KGKSSGGEKL YKGVNAYVDY KAGFRREHTI SSEKAGGAHG PLRASAHIRA 180 SARFDYQPDI CKDYKETGYC GYGDACKFMH DRGDYKSGWQ LEKEWEEVEK ARKRKLAMKS 240 DDGDEDTSEQ SDEDEEDALP FACFICREPF VDPVVTKCKH YFCEHCALKV VALSLSLLVS 300 *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5z56_M	3e-52	96	289	113	288	RING finger protein 113A
5z58_M	3e-52	96	289	113	288	RING finger protein 113A
6ff4_t	3e-52	96	289	113	288	RING finger protein 113A
6ff7_t	3e-52	96	289	113	288	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	LN681816	0.0	LN681816.1 Cucumis melo genomic scaffold, anchoredscaffold01598.
GenBank	LN713257	0.0	LN713257.1 Cucumis melo genomic chromosome, chr_3.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004149426.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 1
Swissprot	Q8GX84	1e-145	C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBL	A0A0A0KFS0	0.0	A0A0A0KFS0_CUCSA; Uncharacterized protein
STRING	XP_004149426.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF7082	33	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01350.1	1e-127	C3H family protein

Link Out ? help Back to Top
Phytozome	Cucsa.060530.1
Entrez Gene	101221334

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]