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.122150.1

Common Name

Csa_1G043020, LOC101210748

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: 425aa MW: 48842.9 Da PI: 9.0233

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.122150.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.7	4.9e-06	57	79	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H Cucsa.122150.1 57 YVCEICNQGFQRDQNLQMHRRRH 79 9*********************9 PP
2	zf-C2H2	16.1	3.1e-05	136	158	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k + +s++k H++t+ Cucsa.122150.1 136 WVCEKCSKGYAVQSDYKAHLKTC 158 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.85E-5	54	80	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	56	79	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.97	57	79	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	57	79	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	59	79	IPR007087	Zinc finger, C2H2
SMART	SM00355	120	100	130	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.4E-4	127	157	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	60	136	163	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: 425 aa Download sequence Send to blast
MLADLSSPSL PCFEPLSNCF ENNGTNNKRK RRPAGTPDPD AEVVSLSPKT LLESDRYVCE 60 ICNQGFQRDQ NLQMHRRRHK VPWKLLKRTE TTTVVRKRVF VCPEPSCLHH NPTHALGDLV 120 GIKKHFRRKH SNHKQWVCEK CSKGYAVQSD YKAHLKTCGT RGHSCDCGRV FSRVESFIEH 180 QDNCKLGHHH QQQQSEQKIP CLSRTASSPT PSPSSDTNFS FLNQNQNQNP KFTSTHHHHH 240 NHGADKYSKK TTIIPQRIIG HNHQNLDLQL STNSTTSIHV SVSPKRHENY STHLQLSIGS 300 CNYGEKLHDH HHDNNNNSND RDHHNDDDDD EKLGFLKLKE EAKEQMRMAM EEKAMAEEAR 360 NEAKKQIEMA EKELVNAKRM RQQAQAELQR ALVLKEHAIK KINSTILQIT CQVCRQHFHP 420 FPKI*

Sequence ? help Back to Top

Protein Sequence Length: 425 aa Download sequence Send to blast

MLADLSSPSL PCFEPLSNCF ENNGTNNKRK RRPAGTPDPD AEVVSLSPKT LLESDRYVCE  60
ICNQGFQRDQ NLQMHRRRHK VPWKLLKRTE TTTVVRKRVF VCPEPSCLHH NPTHALGDLV  120
GIKKHFRRKH SNHKQWVCEK CSKGYAVQSD YKAHLKTCGT RGHSCDCGRV FSRVESFIEH  180
QDNCKLGHHH QQQQSEQKIP CLSRTASSPT PSPSSDTNFS FLNQNQNQNP KFTSTHHHHH  240
NHGADKYSKK TTIIPQRIIG HNHQNLDLQL STNSTTSIHV SVSPKRHENY STHLQLSIGS  300
CNYGEKLHDH HHDNNNNSND RDHHNDDDDD EKLGFLKLKE EAKEQMRMAM EEKAMAEEAR  360
NEAKKQIEMA EKELVNAKRM RQQAQAELQR ALVLKEHAIK KINSTILQIT CQVCRQHFHP  420
FPKI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-17	132	184	3	55	Zinc finger protein JACKDAW
5b3h_F	1e-17	132	184	3	55	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269\|PubMed:16813575, ECO:0000269\|PubMed:18259878, ECO:0000269\|PubMed:24039602, ECO:0000269\|PubMed:9210330}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by auxin. {ECO:0000269\|PubMed:24039602}.

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_011650944.1	0.0	PREDICTED: protein SHOOT GRAVITROPISM 5-like
Swissprot	F4IPE3	1e-134	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBL	A0A0A0LQY7	0.0	A0A0A0LQY7_CUCSA; Uncharacterized protein
STRING	XP_008467125.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1769	32	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G01940.1	1e-100	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Cucsa.122150.1
Entrez Gene	101210748

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Kim JY,Ryu JY,Baek K,Park CM High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis. New Phytol., 2016. 209(1): p. 265-79 [PMID:26256266] Ryu JY,Kim JY,Park CM Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis. Plant Signal Behav, 2015. 10(11): p. e1093715 [PMID:26452406] Qu Y, et al. Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis. J. Exp. Bot., 2017. 68(17): p. 4851-4867 [PMID:28992128] Shi H, et al. Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17. J. Pineal Res., 2018. 65(2): p. e12494 [PMID:29607541]