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.391690.2

Common Name

Csa_1G050060, LOC101210639

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: 420aa MW: 46581.8 Da PI: 4.464

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.391690.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38.2	2.4e-12	143	165	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C f+++tGtCk+G+ CkF+H+ Cucsa.391690.2 143 EDCAFYLKTGTCKFGSFCKFNHP 165 89********************9 PP
2	zf-CCCH	29.4	1.4e-09	189	211	3	25
S---SGGGGTS--TTTTT-SS-S CS zf-CCCH 3 telCrffartGtCkyGdrCkFaH 25 + +C+f++rtG Ck+G+ C+++H Cucsa.391690.2 189 RTECKFYLRTGGCKFGNACRYNH 211 579******************** PP
3	zf-CCCH	43.4	5.5e-14	234	258	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++rtG CkyG++CkF+H+ Cucsa.391690.2 234 DEKECPYYMRTGSCKYGANCKFNHP 258 6789********************9 PP
4	zf-CCCH	33.1	9.3e-11	354	377	4	27
---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHgp 27 C +++r+G+Ck+G++CkF H++ Cucsa.391690.2 354 NVCTYYRRYGICKFGPSCKFDHPF 377 68********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	5.2E-5	139	166	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.4E-6	139	168	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.474	139	167	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.5E-10	143	165	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.6E-4	145	164	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.483	186	214	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.7E-4	187	213	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.1E-7	189	211	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.44E-5	189	214	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.3E-4	192	212	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.258	232	260	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.9E-7	232	259	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.4E-11	234	258	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.4E-7	234	259	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.3E-6	238	257	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.46E-6	346	376	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.033	350	378	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.7E-4	351	377	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.8E-8	353	377	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.5E-4	355	375	IPR000571	Zinc finger, CCCH-type

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

Sequence ? help Back to Top
Protein Sequence Length: 420 aa Download sequence Send to blast
MEPSEAVSVP NHCEAPPSEF QSSQLHSSVH DPPPFDAQHV PTDDRIHAEL QKLDLKDEKE 60 EPVKDFDGGG EWEVEKNPYE DEGNDTKKID ENDRDRSVRN DDDDDYDDVD EEVDAGDGDG 120 GEVERKGDWR GKSNQYPVRP DAEDCAFYLK TGTCKFGSFC KFNHPVRKKN QVVSEKLKYE 180 DDSTGTANRT ECKFYLRTGG CKFGNACRYN HTRPRALTSP ILELNFLGLP IRPDEKECPY 240 YMRTGSCKYG ANCKFNHPDP TTVAGSESLS GYNNGVPLQG ASQSQITSWT SPRVLNEATT 300 FVPAMISPSQ DQDWNGYQAP IYPSEISVLP PPAYVVNNIA PETDLYSSHQ QDQNVCTYYR 360 RYGICKFGPS CKFDHPFLPS SSTVGELEQQ PHYGNFSTAE GAEMAGGASG NSATVEQSA*

Sequence ? help Back to Top

Protein Sequence Length: 420 aa Download sequence Send to blast

MEPSEAVSVP NHCEAPPSEF QSSQLHSSVH DPPPFDAQHV PTDDRIHAEL QKLDLKDEKE  60
EPVKDFDGGG EWEVEKNPYE DEGNDTKKID ENDRDRSVRN DDDDDYDDVD EEVDAGDGDG  120
GEVERKGDWR GKSNQYPVRP DAEDCAFYLK TGTCKFGSFC KFNHPVRKKN QVVSEKLKYE  180
DDSTGTANRT ECKFYLRTGG CKFGNACRYN HTRPRALTSP ILELNFLGLP IRPDEKECPY  240
YMRTGSCKYG ANCKFNHPDP TTVAGSESLS GYNNGVPLQG ASQSQITSWT SPRVLNEATT  300
FVPAMISPSQ DQDWNGYQAP IYPSEISVLP PPAYVVNNIA PETDLYSSHQ QDQNVCTYYR  360
RYGICKFGPS CKFDHPFLPS SSTVGELEQQ PHYGNFSTAE GAEMAGGASG NSATVEQSA*

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	LN681932	0.0	LN681932.1 Cucumis melo genomic scaffold, anchoredscaffold00001.
GenBank	LN713266	0.0	LN713266.1 Cucumis melo genomic chromosome, chr_12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004152505.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 43 isoform X2
Swissprot	Q9STM4	6e-83	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A0A0LU93	0.0	A0A0A0LU93_CUCSA; Uncharacterized protein
STRING	XP_004152505.1	0.0	(Cucumis sativus)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	7e-85	C3H family protein

Link Out ? help Back to Top
Phytozome	Cucsa.391690.2
Entrez Gene	101210639

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] 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]