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

RrC2295_p2

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

MYB_related

Protein Properties

Length: 1176aa MW: 132520 Da PI: 8.9428

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2295_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	22.1	3.6e-07	44	76	3	36
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS- CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRt 36 WT+ E e+++da +++G + W+++a+ + + R+ RrC2295_p2 44 HWTKGELERFYDAYRKHGRD-WRKVAAAVRNSRS 76 5***************77.***99987776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	4.6E-7	43	90	IPR009057	Homeodomain-like
SMART	SM01135	5.3E-43	560	662	IPR033471	DIRP domain
Pfam	PF06584	2.9E-28	560	661	IPR033471	DIRP domain
Gene3D	G3DSA:1.10.472.10	1.2E-29	923	1033	IPR013763	Cyclin-like
SuperFamily	SSF47954	8.06E-25	923	1019	IPR013763	Cyclin-like
CDD	cd00043	4.67E-15	937	1004	No hit	No description
Pfam	PF00134	2.7E-8	937	999	IPR006671	Cyclin, N-terminal
SMART	SM00385	3.6E-9	943	1055	IPR013763	Cyclin-like
Pfam	PF16899	2.5E-10	1024	1120	IPR031658	Cyclin, C-terminal domain 2
SuperFamily	SSF47954	1.13E-24	1024	1145	IPR013763	Cyclin-like
Gene3D	G3DSA:1.10.472.10	3.0E-18	1034	1121	IPR013763	Cyclin-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1176 aa Download sequence Send to blast
MAPSRTSKSV YKRSTREPSP QRDLRNSSKT KPRRKILTDK LGPHWTKGEL ERFYDAYRKH 60 GRDWRKVAAA VRNSRSVDMV EALFNMNRAY LSLPEGTASV AGLIAMMTDH YSVIEESESD 120 EEGHGASGLS MKYQKRKLAK LPSSDFREEV YPPHQVASAE GCLSFLKLTQ TYGMERRAAG 180 KRTPRFPVPS EYQRDDREVS MPPNKRAKKQ LEADDDDTLA LALANAARRG GGSPHRRAEG 240 NRSTPNGKMS QAKEAQSKHR ASSMVRNVVI IGRDRRHIKG APDGDVALLM DTEGVGTVEV 300 PQKGKNVRFE EAEGDASDDR GKACNANEGL KSGDEFEALQ ALAELSALLS SDGLKESESN 360 PRLKEDNRIA NNVDEKPNTP ETFVRSYHRR KSKQAGPEED SLLPAISAAD ASNQQIIDAN 420 AVSIGELGTS KRKRKTLHNK ESAEDDNLKT LIKKARRADQ SPPKQLRTAK TSEESSSTSD 480 RKITGPDAVV SATQVPVQKP PNRRKLSLKK SLQERSKSSE ATHEKPNSYE TNSKHELLKE 540 QVSTCLSHQL VRRRCIFEWF YSAIDYPWFA KMEFIDFLNH LGIGNAPRLT RLEWSVIKSS 600 LGRTRRFSEK FIQEERDKLK QHRESAREHY TEIRAGGARE VLPRDFAQPL SVGNRVIAVH 660 PKTREIRDGK ILTVDHNNKC KVLFDDLGVD LVMDIDIMPL NSLEYMPDGL RRQVESKEAE 720 VNRRPRSDAS ALFPPSVLEN IDFSMIPRKK QDDRDTTDQS FNTADNKTRQ GEIRRALMLE 780 DTSDAESWSP SDTEGLMMPS ELIASCISTW LMIQRCTEKK YPPADVAQVM EIAVRSLEPR 840 CHQNMPVYRD IQTCMGWITN QIMTLPRIAV AVVVVDSAER YKAANQRAVQ LLEKCGTTQV 900 EVDASGSLTY PTEKVDAGGD QGDKKLKPLS VDEERFMRAF YEAKVQEVCS AFEFPHKIQA 960 TALQYFKRFY LQWSVMQHHP KEIMLTCVYA ACKIEENHVS AEEIGKGIKQ DHHSLEFDLI 1020 VYAPYRAIEG FVSNMEEFLQ ARDDEIQKLE SLLKAATAEA DKIMLTDAPL LFPPGQLALA 1080 ALRIANGVLG VVLENIVSQP NSEHTTSELI KLLDDVEYLV KNYKYPSEKD MKHINRKLKS 1140 CLGHSSSHDE SKKREKRSKH KSHKNSSDTP KGPPIG

Sequence ? help Back to Top

Protein Sequence Length: 1176 aa Download sequence Send to blast

MAPSRTSKSV YKRSTREPSP QRDLRNSSKT KPRRKILTDK LGPHWTKGEL ERFYDAYRKH  60
GRDWRKVAAA VRNSRSVDMV EALFNMNRAY LSLPEGTASV AGLIAMMTDH YSVIEESESD  120
EEGHGASGLS MKYQKRKLAK LPSSDFREEV YPPHQVASAE GCLSFLKLTQ TYGMERRAAG  180
KRTPRFPVPS EYQRDDREVS MPPNKRAKKQ LEADDDDTLA LALANAARRG GGSPHRRAEG  240
NRSTPNGKMS QAKEAQSKHR ASSMVRNVVI IGRDRRHIKG APDGDVALLM DTEGVGTVEV  300
PQKGKNVRFE EAEGDASDDR GKACNANEGL KSGDEFEALQ ALAELSALLS SDGLKESESN  360
PRLKEDNRIA NNVDEKPNTP ETFVRSYHRR KSKQAGPEED SLLPAISAAD ASNQQIIDAN  420
AVSIGELGTS KRKRKTLHNK ESAEDDNLKT LIKKARRADQ SPPKQLRTAK TSEESSSTSD  480
RKITGPDAVV SATQVPVQKP PNRRKLSLKK SLQERSKSSE ATHEKPNSYE TNSKHELLKE  540
QVSTCLSHQL VRRRCIFEWF YSAIDYPWFA KMEFIDFLNH LGIGNAPRLT RLEWSVIKSS  600
LGRTRRFSEK FIQEERDKLK QHRESAREHY TEIRAGGARE VLPRDFAQPL SVGNRVIAVH  660
PKTREIRDGK ILTVDHNNKC KVLFDDLGVD LVMDIDIMPL NSLEYMPDGL RRQVESKEAE  720
VNRRPRSDAS ALFPPSVLEN IDFSMIPRKK QDDRDTTDQS FNTADNKTRQ GEIRRALMLE  780
DTSDAESWSP SDTEGLMMPS ELIASCISTW LMIQRCTEKK YPPADVAQVM EIAVRSLEPR  840
CHQNMPVYRD IQTCMGWITN QIMTLPRIAV AVVVVDSAER YKAANQRAVQ LLEKCGTTQV  900
EVDASGSLTY PTEKVDAGGD QGDKKLKPLS VDEERFMRAF YEAKVQEVCS AFEFPHKIQA  960
TALQYFKRFY LQWSVMQHHP KEIMLTCVYA ACKIEENHVS AEEIGKGIKQ DHHSLEFDLI  1020
VYAPYRAIEG FVSNMEEFLQ ARDDEIQKLE SLLKAATAEA DKIMLTDAPL LFPPGQLALA  1080
ALRIANGVLG VVLENIVSQP NSEHTTSELI KLLDDVEYLV KNYKYPSEKD MKHINRKLKS  1140
CLGHSSSHDE SKKREKRSKH KSHKNSSDTP KGPPIG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1kxu_A	4e-30	933	1168	62	327	CYCLIN H
Search in ModeBase

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	AB051072	1e-161	AB051072.1 Arabidopsis thaliana AtCycH1 mRNA for cyclin H, complete cds.
GenBank	AK118707	1e-161	AK118707.1 Arabidopsis thaliana At5g27620 mRNA for putative cyclin H (AtCycH1), complete cds, clone: RAFL21-01-O06.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018433094.1	0.0	PREDICTED: protein ALWAYS EARLY 1-like
Refseq	XP_018433097.1	0.0	PREDICTED: protein ALWAYS EARLY 1-like
Swissprot	Q6A331	0.0	ALY1_ARATH; Protein ALWAYS EARLY 1
TrEMBL	M4DVP0	0.0	M4DVP0_BRARP; Uncharacterized protein
STRING	Bra020584.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2962	22	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G21430.2	2e-60	DNA binding

Publications ? help Back to Top
Pfaff C, et al. ALY RNA-Binding Proteins Are Required for Nucleocytosolic mRNA Transport and Modulate Plant Growth and Development. Plant Physiol., 2018. 177(1): p. 226-240 [PMID:29540591]