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.211400.1

Common Name

Csa_5G092930, LOC101210468

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: 146aa MW: 16575.8 Da PI: 9.4787

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.211400.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	20.6	1.1e-06	25	47	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H Cucsa.211400.1 25 YVCEICNQGFQRDQNLQMHRRRH 47 9*********************9 PP
2	zf-C2H2	17	1.7e-05	109	131	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C +C+k + +s++k H++t+ Cucsa.211400.1 109 WVCDKCSKAYAVHSDFKAHLKTC 131 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	4.0E-6	24	47	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.97E-6	24	47	No hit	No description
PROSITE profile	PS50157	10.97	25	47	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	25	47	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS01359	0	27	114	IPR019786	Zinc finger, PHD-type, conserved site
PROSITE pattern	PS00028	0	27	47	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.9E-5	100	130	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.97E-6	104	129	No hit	No description
SMART	SM00355	58	109	136	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: 146 aa Download sequence Send to blast
PAGTPDPDAE VVSLSPKTLL ESDRYVCEIC NQGFQRDQNL QMHRRRHKVP WKLVKRAEAE 60 SSSSNVVVKK KVFVCPEPTC LHHHPCHALG DLVGIKKHFR RKHSNQKQWV CDKCSKAYAV 120 HSDFKAHLKT CGTRGHSCDC GRVFSX

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-13	105	145	3	43	Zinc finger protein JACKDAW
5b3h_F	4e-13	105	145	3	43	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	LN681895	0.0	LN681895.1 Cucumis melo genomic scaffold, anchoredscaffold00005.
GenBank	LN713263	0.0	LN713263.1 Cucumis melo genomic chromosome, chr_9.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004150157.2	1e-106	PREDICTED: protein SHOOT GRAVITROPISM 5
Refseq	XP_008466889.1	1e-106	PREDICTED: protein SHOOT GRAVITROPISM 5
Swissprot	F4IPE3	5e-92	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBL	A0A0A0KJ22	1e-104	A0A0A0KJ22_CUCSA; Uncharacterized protein
TrEMBL	A0A1S3CS86	1e-104	A0A1S3CS86_CUCME; protein SHOOT GRAVITROPISM 5
STRING	XP_008466889.1	1e-105	(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	2e-88	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Cucsa.211400.1
Entrez Gene	101210468

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]