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.181990.1

Common Name

Csa_1G569480, LOC101206977

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

C2H2

Protein Properties

Length: 449aa MW: 49069.8 Da PI: 8.8002

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.181990.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.3	0.00012	76	96	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++C+k F r nL+ H r H Cucsa.181990.1 76 CEICNKGFQRDQNLQLHRRGH 96 *******************88 PP
2	zf-C2H2	16	3.4e-05	151	173	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+Lk H + + Cucsa.181990.1 151 WKCEKCSKKYAVQSDLKAHTKAC 173 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.72E-8	73	96	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.0E-5	73	96	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.824	74	96	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.11	74	96	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	76	96	IPR007087	Zinc finger, C2H2
SMART	SM00355	85	116	146	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.7E-5	139	171	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.72E-8	146	171	No hit	No description
PROSITE profile	PS50157	8.6	151	179	IPR007087	Zinc finger, C2H2
SMART	SM00355	58	151	171	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 449 aa Download sequence Send to blast
MSKISGCSDD GGSFVSDAEK LENQFFNGTF ESHHQQPQPQ LVVPKKKRNL PGTPVPDAEV 60 VALSPETLMA TNRFLCEICN KGFQRDQNLQ LHRRGHNLPW KLKQRTSGSE TKRKVYVCPE 120 PSCVHHDPGR ALGDLTGIKK HFSRKHGEKK WKCEKCSKKY AVQSDLKAHT KACGSKEYKC 180 DCGTIFSRRD SFITHRAFCD ALAEEHNKLV NAHQGATTMA SSTAINGPNS FQPQPLSRLL 240 SRPGILSLPL TTLPHDLMPI PPKPLNLSAG SMFSSSISNN STTPTTFQND NHLFSSSSAL 300 MSATALLQKA AQMGAAVSSG GNSGTPCFNS PMIHEKKGFV TTMAPSSFCG LLATNCLQRC 360 PQDQNMLSQL PSKGKAMDME MMIDDDNNNN NITMMNGVFD QRSLLVEAAR KTTTLDLLGD 420 EGGNNKGMKF QAQDHQSSVG LLEGLWRI*

Sequence ? help Back to Top

Protein Sequence Length: 449 aa Download sequence Send to blast

MSKISGCSDD GGSFVSDAEK LENQFFNGTF ESHHQQPQPQ LVVPKKKRNL PGTPVPDAEV  60
VALSPETLMA TNRFLCEICN KGFQRDQNLQ LHRRGHNLPW KLKQRTSGSE TKRKVYVCPE  120
PSCVHHDPGR ALGDLTGIKK HFSRKHGEKK WKCEKCSKKY AVQSDLKAHT KACGSKEYKC  180
DCGTIFSRRD SFITHRAFCD ALAEEHNKLV NAHQGATTMA SSTAINGPNS FQPQPLSRLL  240
SRPGILSLPL TTLPHDLMPI PPKPLNLSAG SMFSSSISNN STTPTTFQND NHLFSSSSAL  300
MSATALLQKA AQMGAAVSSG GNSGTPCFNS PMIHEKKGFV TTMAPSSFCG LLATNCLQRC  360
PQDQNMLSQL PSKGKAMDME MMIDDDNNNN NITMMNGVFD QRSLLVEAAR KTTTLDLLGD  420
EGGNNKGMKF QAQDHQSSVG LLEGLWRI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-31	147	209	3	65	Zinc finger protein JACKDAW
5b3h_F	2e-31	147	209	3	65	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

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	LN681806	0.0	LN681806.1 Cucumis melo genomic scaffold, anchoredscaffold00025.
GenBank	LN713256	0.0	LN713256.1 Cucumis melo genomic chromosome, chr_2.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004135615.1	0.0	PREDICTED: protein indeterminate-domain 2
Swissprot	Q9SCQ6	1e-103	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0A0LZ12	0.0	A0A0A0LZ12_CUCSA; Uncharacterized protein
STRING	XP_004135615.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF181	34	275

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G45260.1	2e-88	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Cucsa.181990.1
Entrez Gene	101206977

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] Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]