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

RrC2179_p5

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

bZIP

Protein Properties

Length: 792aa MW: 85644.7 Da PI: 6.5226

Description

bZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2179_p5	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	bZIP_1	46.8	6.3e-15	722	764	5	47
CHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS bZIP_1 5 krerrkqkNReAArrsRqRKkaeieeLeekvkeLeaeNkaLkk 47 ++++r++kNRe+A rsR+RK+a++ eLe kv Le+eN++L+ RrC2179_p5 722 RKQKRMIKNRESAARSRARKQAYTHELEIKVSRLEEENERLRR 764 689**************************************94 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.70.330	2.4E-21	29	58	IPR012677	Nucleotide-binding alpha-beta plait domain
Gene3D	G3DSA:3.30.70.330	2.4E-21	128	216	IPR012677	Nucleotide-binding alpha-beta plait domain
SuperFamily	SSF54928	4.16E-21	131	212	IPR012677	Nucleotide-binding alpha-beta plait domain
CDD	cd12384	3.14E-26	132	207	No hit	No description
PROSITE profile	PS50102	14.385	132	209	IPR000504	RNA recognition motif domain
SMART	SM00360	1.8E-19	133	205	IPR000504	RNA recognition motif domain
Pfam	PF00076	3.4E-13	134	196	IPR000504	RNA recognition motif domain
Gene3D	G3DSA:3.30.70.330	2.2E-18	223	320	IPR012677	Nucleotide-binding alpha-beta plait domain
SuperFamily	SSF54928	8.33E-22	229	344	IPR012677	Nucleotide-binding alpha-beta plait domain
CDD	cd12384	2.62E-31	240	315	No hit	No description
PROSITE profile	PS50102	12.424	240	316	IPR000504	RNA recognition motif domain
SMART	SM00360	1.2E-15	241	313	IPR000504	RNA recognition motif domain
Pfam	PF00076	4.0E-11	242	311	IPR000504	RNA recognition motif domain
Gene3D	G3DSA:1.20.5.170	3.4E-13	715	765	No hit	No description
SMART	SM00338	2.3E-12	718	790	IPR004827	Basic-leucine zipper domain
PROSITE profile	PS50217	11.312	720	765	IPR004827	Basic-leucine zipper domain
SuperFamily	SSF57959	8.75E-10	722	767	No hit	No description
Pfam	PF00170	7.6E-12	722	765	IPR004827	Basic-leucine zipper domain
CDD	cd14707	2.78E-24	722	776	No hit	No description
PROSITE pattern	PS00036	0	725	740	IPR004827	Basic-leucine zipper domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006952	Biological Process	defense response
GO:0008219	Biological Process	cell death
GO:0009693	Biological Process	ethylene biosynthetic process
GO:0010150	Biological Process	leaf senescence
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
GO:0000166	Molecular Function	nucleotide binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0017091	Molecular Function	AU-rich element binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 792 aa Download sequence Send to blast
MAKKRKLEAQ LIAEASSEPS SQKKIATNNN QLNQKEVEYE EVEEEHEEEV EEDDNDDNDE 60 EEEDDNRMVA AAASGSGNHQ GDDADDDDEP IQDLLEPFSK EQLLSLLKEA AEKHRDVANR 120 IREVADEDPV HRKIFVHGLG WDTKTETLIE AFKQYGEIED CKAVFDKVSG KSKGYGFILF 180 KSRSGARHAL KQPQKKIGSR MTACQLASKG PVFGGNNPVA ASSGASIAPA QHSNSEHTQK 240 KIYVSNVGAE LDPQKLLAFF SKFGEIEEGP LGLDKYTGRP KGFCLFVYKS AESAKRALEE 300 PHKTFEGHVL HCQKAIDGPK PGKQQQQFNS NPRFPRNDNS GGYGTPTGHG HLMAGNQAGM 360 GTPVQAMNPA FGQALTALLA TQGGLAFNPA LGQALLGSLG TAAGVNPGAG VGMPTGYGTQ 420 PMTPGSIPGY GGQPGLQGGY QTPPPGQGGT GRGQHGVGHY PYMGHTVRWF GAKTYPSLLS 480 GLEAKLLPCT GIDVLERSGP ESDSKRGVVE ELRSQSLNRQ GSLYSLTLDE VQTHLGSSGK 540 ALGSMNLDEL LKSVCSVEAN QPSSMALNGA ASGAATQEGL SRQGSLTLPR DLSKKTVEEV 600 WKDIQQDKNG GSSGGRHERR DKQPTLGEMT LEDLLLKAGV VTETVPGGSA GMEQNITPAV 660 TPWVQYHQLP SMPQPQSFMP YPVADMQAMV SQSSLMGGLS DTQTPGRKRL ASGEVVEKTV 720 ERKQKRMIKN RESAARSRAR KQAYTHELEI KVSRLEEENE RLRRQKEVEK ILPSAPPPDP 780 KRQLRRTSSA PF

Sequence ? help Back to Top

Protein Sequence Length: 792 aa Download sequence Send to blast

MAKKRKLEAQ LIAEASSEPS SQKKIATNNN QLNQKEVEYE EVEEEHEEEV EEDDNDDNDE  60
EEEDDNRMVA AAASGSGNHQ GDDADDDDEP IQDLLEPFSK EQLLSLLKEA AEKHRDVANR  120
IREVADEDPV HRKIFVHGLG WDTKTETLIE AFKQYGEIED CKAVFDKVSG KSKGYGFILF  180
KSRSGARHAL KQPQKKIGSR MTACQLASKG PVFGGNNPVA ASSGASIAPA QHSNSEHTQK  240
KIYVSNVGAE LDPQKLLAFF SKFGEIEEGP LGLDKYTGRP KGFCLFVYKS AESAKRALEE  300
PHKTFEGHVL HCQKAIDGPK PGKQQQQFNS NPRFPRNDNS GGYGTPTGHG HLMAGNQAGM  360
GTPVQAMNPA FGQALTALLA TQGGLAFNPA LGQALLGSLG TAAGVNPGAG VGMPTGYGTQ  420
PMTPGSIPGY GGQPGLQGGY QTPPPGQGGT GRGQHGVGHY PYMGHTVRWF GAKTYPSLLS  480
GLEAKLLPCT GIDVLERSGP ESDSKRGVVE ELRSQSLNRQ GSLYSLTLDE VQTHLGSSGK  540
ALGSMNLDEL LKSVCSVEAN QPSSMALNGA ASGAATQEGL SRQGSLTLPR DLSKKTVEEV  600
WKDIQQDKNG GSSGGRHERR DKQPTLGEMT LEDLLLKAGV VTETVPGGSA GMEQNITPAV  660
TPWVQYHQLP SMPQPQSFMP YPVADMQAMV SQSSLMGGLS DTQTPGRKRL ASGEVVEKTV  720
ERKQKRMIKN RESAARSRAR KQAYTHELEI KVSRLEEENE RLRRQKEVEK ILPSAPPPDP  780
KRQLRRTSSA PF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2lyv_A	7e-15	132	316	15	182	Heterogeneous nuclear ribonucleoprotein A1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Heterogeneous nuclear ribonucleoprotein (hnRNP)-like protein that acts as component of a complex regulating the turnover of mRNAs in the nucleus. Binds with high affinity to RNA molecules that contain U-rich sequences in 3'-UTRs. May function in complex with UBP1 and contribute to the stabilization of mRNAs in the nucleus. However, unlike UBP1, UBA2A does not stimulate pre-mRNA splicing. {ECO:0000269\|PubMed:12024044}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By wounding. {ECO:0000269\|PubMed:18278441}.

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	AC189456	0.0	AC189456.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB073D09, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018488365.1	0.0	PREDICTED: UBP1-associated protein 2A
Refseq	XP_018488366.1	0.0	PREDICTED: UBP1-associated protein 2A
Refseq	XP_018488367.1	0.0	PREDICTED: UBP1-associated protein 2A
Refseq	XP_018488368.1	0.0	PREDICTED: UBP1-associated protein 2A
Swissprot	Q9LES2	0.0	UBA2A_ARATH; UBP1-associated protein 2A
TrEMBL	A0A3N6QC44	0.0	A0A3N6QC44_BRACR; Uncharacterized protein
STRING	Bo8g091180.1	0.0	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G56850.1	1e-166	ABA-responsive element binding protein 3

Publications ? help Back to Top
Lambermon MH, et al. UBA1 and UBA2, two proteins that interact with UBP1, a multifunctional effector of pre-mRNA maturation in plants. Mol. Cell. Biol., 2002. 22(12): p. 4346-57 [PMID:12024044] Li J, et al. Modulation of an RNA-binding protein by abscisic-acid-activated protein kinase. Nature, 2002. 418(6899): p. 793-7 [PMID:12181571] Riera M,Redko Y,Leung J Arabidopsis RNA-binding protein UBA2a relocalizes into nuclear speckles in response to abscisic acid. FEBS Lett., 2006. 580(17): p. 4160-5 [PMID:16828085] Bove J,Kim CY,Gibson CA,Assmann SM Characterization of wound-responsive RNA-binding proteins and their splice variants in Arabidopsis. Plant Mol. Biol., 2008. 67(1-2): p. 71-88 [PMID:18278441] Na JK,Kim JK,Kim DY,Assmann SM Expression of potato RNA-binding proteins StUBA2a/b and StUBA2c induces hypersensitive-like cell death and early leaf senescence in Arabidopsis. J. Exp. Bot., 2015. 66(13): p. 4023-33 [PMID:25944928]