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

PSME_00055195-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

C2H2

Protein Properties

Length: 348aa MW: 39235.3 Da PI: 8.2863

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00055195-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.9	3.6e-05	187	206	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ PSME_00055195-RA 187 FSCPVCAKTFNRYNNMQMHM 206 89*****************9 PP
2	zf-C2H2	11.9	0.00071	272	294	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C +C+k+F + + ++H +++ PSME_00055195-RA 272 FMCCKCNKTFAVRGDWRTHEKNC 294 89*****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.5E-5	182	209	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.8E-6	187	206	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.14	187	209	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.159	187	214	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	189	209	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	235	267	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	9.67E-6	254	292	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-4	259	292	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	70	272	292	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: 348 aa Download sequence Send to blast
MNTKSDNLHQ YTSVGTVAAA APNPISITEC IKPLESPTDS ISSTRLPLAI PCTDSFVGHQ 60 KPSNDVNIND QNRVFFQQLQ QPPKRYCQSS PLREELPLLL SLSPPREKRS GEDKIRSDPE 120 ENAMVSLHIG PPNSLSEKSE LSLKSTDSSD ADKESIVQPR SEGRTRFSES QYWIPTPSQI 180 LIGATQFSCP VCAKTFNRYN NMQMHMWGHG SQYRKGPESL RGTQPTAILL RLPCYCCTQG 240 CRNNIDHPRA KPLKDFRTLQ THYKRKHGIK PFMCCKCNKT FAVRGDWRTH EKNCGKLWYC 300 SCGSDFKHKR SLKDHIRAFG QGHAPIAPDS FEDEEDLGSE DEVSVLSH

Sequence ? help Back to Top

Protein Sequence Length: 348 aa Download sequence Send to blast

MNTKSDNLHQ YTSVGTVAAA APNPISITEC IKPLESPTDS ISSTRLPLAI PCTDSFVGHQ  60
KPSNDVNIND QNRVFFQQLQ QPPKRYCQSS PLREELPLLL SLSPPREKRS GEDKIRSDPE  120
ENAMVSLHIG PPNSLSEKSE LSLKSTDSSD ADKESIVQPR SEGRTRFSES QYWIPTPSQI  180
LIGATQFSCP VCAKTFNRYN NMQMHMWGHG SQYRKGPESL RGTQPTAILL RLPCYCCTQG  240
CRNNIDHPRA KPLKDFRTLQ THYKRKHGIK PFMCCKCNKT FAVRGDWRTH EKNCGKLWYC  300
SCGSDFKHKR SLKDHIRAFG QGHAPIAPDS FEDEEDLGSE DEVSVLSH

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269\|PubMed:17600712, ECO:0000269\|PubMed:23515580, ECO:0000269\|PubMed:25039392}.

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	BT105249	0.0	BT105249.1 Picea glauca clone GQ02820_C16 mRNA sequence.
GenBank	EF083642	0.0	EF083642.1 Picea sitchensis clone WS02814_N24 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010246927.1	1e-121	PREDICTED: zinc finger protein WIP2-like
Swissprot	Q9SVY1	1e-109	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	A9NQR7	1e-168	A9NQR7_PICSI; Uncharacterized protein
STRING	PP1S359_44V6.1	1e-120	(Physcomitrella patens)
STRING	XP_010246927.1	1e-121	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57670.1	1e-110	C2H2 family protein

Publications ? help Back to Top
Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656]