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

Neem_9054_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

C2H2

Protein Properties

Length: 418aa MW: 47157.1 Da PI: 8.8486

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_9054_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.7	4.8e-06	28	50	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H Neem_9054_f_1 28 YVCEICNQGFQRDQNLQMHRRRH 50 9*********************9 PP
2	zf-C2H2	16.2	3e-05	105	127	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k + +s++k H++t+ Neem_9054_f_1 105 WVCEKCSKGYAVQSDYKAHLKTC 127 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.23E-5	27	50	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	27	50	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0052	28	50	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.97	28	50	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	30	50	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS01359	0	30	110	IPR019786	Zinc finger, PHD-type, conserved site
SMART	SM00355	210	69	99	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.3E-4	96	126	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.23E-5	100	125	No hit	No description
SMART	SM00355	60	105	132	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: 418 aa Download sequence Send to blast
MQEVGAMGYP DAEVVSLSPK TLLESDRYVC EICNQGFQRD QNLQMHRRRH KVPWKLLKRE 60 TPVVRKRVFV CPEPSCLHHD PCHALGDLVG IKKHFRRKHS NHKQWVCEKC SKGYAVQSDY 120 KAHLKTCGTR GHSCDCGRVF SRVESFIEHQ DACSMGRLRS EPQGLQPACL SRTASSPSPS 180 SETNFTTSPW PNLMIPKPTI DAMFLTHTEE KSSRNANYHN LELQLSTISN PIDVSVSPKR 240 DENHSTQLQL SIGSSDFSEK NDSNISYAKK DAEKNSPKES STNEKPGVVA SRLKEQAREQ 300 LRLAMAEKAY AEEARLAAKR QTELAEQEFA NAKRIRQQAQ AELDKAQALK EHAIKQINST 360 ILRITCHACK QHFQARIPPD ENSLVLSYMS SATTTTEGEV NNDNHRNSRL AKTINPSN

Sequence ? help Back to Top

Protein Sequence Length: 418 aa Download sequence Send to blast

MQEVGAMGYP DAEVVSLSPK TLLESDRYVC EICNQGFQRD QNLQMHRRRH KVPWKLLKRE  60
TPVVRKRVFV CPEPSCLHHD PCHALGDLVG IKKHFRRKHS NHKQWVCEKC SKGYAVQSDY  120
KAHLKTCGTR GHSCDCGRVF SRVESFIEHQ DACSMGRLRS EPQGLQPACL SRTASSPSPS  180
SETNFTTSPW PNLMIPKPTI DAMFLTHTEE KSSRNANYHN LELQLSTISN PIDVSVSPKR  240
DENHSTQLQL SIGSSDFSEK NDSNISYAKK DAEKNSPKES STNEKPGVVA SRLKEQAREQ  300
LRLAMAEKAY AEEARLAAKR QTELAEQEFA NAKRIRQQAQ AELDKAQALK EHAIKQINST  360
ILRITCHACK QHFQARIPPD ENSLVLSYMS SATTTTEGEV NNDNHRNSRL AKTINPSN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-18	103	153	5	55	Zinc finger protein JACKDAW
5b3h_F	6e-18	103	153	5	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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006494619.1	0.0	protein SHOOT GRAVITROPISM 5-like
Swissprot	F4IPE3	1e-145	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBL	A0A2H5QRM9	0.0	A0A2H5QRM9_CITUN; Uncharacterized protein
STRING	XP_006494619.1	0.0	(Citrus sinensis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM693	28	131

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25250.1	1e-132	indeterminate(ID)-domain 16

Publications ? help Back to Top
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]