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

OGLUM02G32070.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

MYB

Protein Properties

Length: 2082aa MW: 232303 Da PI: 7.3093

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM02G32070.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	41.6	2.9e-13	1842	1889	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT++Ed++lv G +W+++++ g+ R++k+c++rw +yl OGLUM02G32070.1 1842 KGPWTADEDQKLVTFLLSNGHCCWRLVPKLAGLLRCGKSCRLRWTNYL 1889 79****************************99**********97 PP
2	Myb_DNA-binding	54.1	3.6e-17	1898	1939	4	47
S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 ++eE++l +d+++qlG++ W++Ia++++ gRt++++k++w+++ OGLUM02G32070.1 1898 LSEEEEKLVIDLHEQLGNR-WSKIAARLP-GRTDNEIKNHWNTH 1939 599**************.*****.**********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF11573	9.8E-38	563	1290	IPR021629	Mediator complex, subunit Med23
Gene3D	G3DSA:1.10.10.60	5.4E-18	1833	1890	IPR009057	Homeodomain-like
PROSITE profile	PS51294	13.881	1837	1889	IPR017930	Myb domain
SuperFamily	SSF46689	1.91E-25	1839	1936	IPR009057	Homeodomain-like
SMART	SM00717	5.7E-11	1841	1891	IPR001005	SANT/Myb domain
Pfam	PF00249	8.0E-12	1842	1889	IPR001005	SANT/Myb domain
CDD	cd00167	1.22E-7	1844	1889	No hit	No description
PROSITE profile	PS51294	27.855	1890	1944	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	3.3E-24	1891	1945	IPR009057	Homeodomain-like
SMART	SM00717	2.4E-16	1894	1942	IPR001005	SANT/Myb domain
Pfam	PF00249	4.3E-15	1898	1939	IPR001005	SANT/Myb domain
CDD	cd00167	1.18E-12	1899	1940	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016592	Cellular Component	mediator complex
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 2082 aa Download sequence Send to blast
MQLRLHIPPS VDLFPFPQTA RAHQVRSATL LNPRSEQAHR TTPVAGDGSG ASAMDGAHGQ 60 RQPMSPAISA SAVLPQQRQM QLHHHHHHPA RSAIADLFTL YLGMNSKQRI EDPTRETSNK 120 LQKRVTAMNR DLPPRDEQFI SDFEQLHMQF PDQEQLQAVT ESVLISFVLQ CSSHAPQSEF 180 LLFATRCLCA RGHLRWDSLL PSLLNVVSSV EVPMGQGVSV TTGGPATSSS SAIAVPNAPS 240 FHPSNPTSPL SAMNTIGSPT QSGIDQPIGA NVSPIKGAEF SSPGQLGLTA RGDQSRRGAE 300 ISYLHHLSCR IILAGLESDL KPATHAVIFQ HMVNWLVNWD QRPHGVDQAD ALQLQTLRLE 360 RPLHEWMHLC LDVIWILVNE DKCRVPFYEL VRSNLQFLEN IPDDEALVSI IMEIHRRRDM 420 VCMHMQMLDQ HLHCPTFATH RFLSQSYPSI AGESVANLRY SPITYPSVLG EPLHGEDLAN 480 SIPKGGLDWE RALRCLRHAL CTTPSPDWWR RVLLVAPCYR QHPQQSSTPG AVFSPDMIGE 540 AVADRTIELL RLTNSETQCW QDWLLFADIF FFLMKSGCID FLDFVDKLAS RVTNSDQQIL 600 RSNHVTWLLA QIIRIEIVMN TLSSDPRKVE TTRKIISFHK EDKSLDPNNI SPQSILLDFI 660 SSSQTLRIWS FNTSIREHLN SDQLQKGKQI DEWWKQMTKA SGERMIDFTS LDERAMGMFW 720 VLSFTMAQPA CEAVMNWFTS VGVADLIQGP NLQPNERMTM MRETYPLSMS LLSGLSINLC 780 LKLAFQLEET IFLGQNVPSI AMVETYVRLL LITPHSLFRP HFTTLTQRSP SILSKSGVSL 840 LLLEILNYRL LPLYRYHGKS KALMYDVTKI ISMIKVKRGE HRLFRLAENL CMNLILSLRD 900 FFLVKKELKG PTEFTETLNR ITIISLAITM KTRGIAEVEH IIYLQPLLEQ IMATSQHTWS 960 EKTLRYFPPL IRDFLMGRMD KRGQAIQAWQ QAETTVINQC NQLLSPSAEP TYVMTYLSHS 1020 FPQHRQYLCA GAWMLMNGHL EINSANLARV LREFSPEEVT ANIYTMVDVL LHHIQLELQR 1080 GHQIQDLLSK AITNLAFFIW THELLPLDIL LLALIDRDDD PYALRLVINL LERPELQQRI 1140 KAFCTSRSPE HWLKNQPPKR VELQKALGNH LSGKERYPPF FDDIAARLLP VIPLIIYRLI 1200 ENDATDIADR VLAVYSTFLA FHPLRFTFVR DILAYFYGHL PSKLIVRILN VLGVSTKTPF 1260 SESFAQYLAS SNSSICPPPE YFANLLFGLV NNVIPPLSCK SKSNPSDAAG STARTTYNKP 1320 HTSSAGGISN SDGQRAFYQN QDPGSYTQLV LETAAIEILS LCVPASQIVS SLVQIIAHVQ 1380 AMLIQSNSGH GMSGGLGQNS GVPTSSGGGV EPVGANRPNT TASGINASNF VSRSGYSCQQ 1440 LSVLMIQACG LLLAQLPPEF HTLLYAEAAR IIKDCWWLAD SSRPVKELDS AVGYALLDPT 1500 WASQDNTSTA IGNIVALLHS FFSNLPHEWL ESTHTVIKHL RPVNSVAMLR IAFRILGPLL 1560 PRLAFARPLF MKTLALLFNV LGDVFGKNSQ ASPPVEASEI ADIIDFLHHA VMYEGQGGPV 1620 QSTSKPKLEI LTLCGKVMEI LRPDVQHLLS HLKTDPNSSV YAATHPKLLP PHSCTADYGR 1680 QYYIEVGFVN AEGSWLYTII GSTQADLIKH NKGERAVTQL LKDVDPLQTA VVLTLRRQRP 1740 RRELSPDYTC TRNSILEAWR ARRLAADVSD GLTPSRLRLA SAFPLLAASI NPRAAPEPLQ 1800 IKTRVSSSGS VHPSREIQIA SQIRDQRVMG RQPCCEKVGL KKGPWTADED QKLVTFLLSN 1860 GHCCWRLVPK LAGLLRCGKS CRLRWTNYLR PDLKRGLLSE EEEKLVIDLH EQLGNRWSKI 1920 AARLPGRTDN EIKNHWNTHI KKKLKKMGLD PVTHRPVMSL AQPDPLKQQQ QQQEPSVSGG 1980 TGADDKEEEE ETPTSAQPQG VACAASSASA VSSSCSSSAS ASAATPGADV DWPGLFEVDA 2040 ILDIDWAGLL SACGDDGGCS AIGVDMLFDQ CSDVGFDQDV WM

Sequence ? help Back to Top

Protein Sequence Length: 2082 aa Download sequence Send to blast

MQLRLHIPPS VDLFPFPQTA RAHQVRSATL LNPRSEQAHR TTPVAGDGSG ASAMDGAHGQ  60
RQPMSPAISA SAVLPQQRQM QLHHHHHHPA RSAIADLFTL YLGMNSKQRI EDPTRETSNK  120
LQKRVTAMNR DLPPRDEQFI SDFEQLHMQF PDQEQLQAVT ESVLISFVLQ CSSHAPQSEF  180
LLFATRCLCA RGHLRWDSLL PSLLNVVSSV EVPMGQGVSV TTGGPATSSS SAIAVPNAPS  240
FHPSNPTSPL SAMNTIGSPT QSGIDQPIGA NVSPIKGAEF SSPGQLGLTA RGDQSRRGAE  300
ISYLHHLSCR IILAGLESDL KPATHAVIFQ HMVNWLVNWD QRPHGVDQAD ALQLQTLRLE  360
RPLHEWMHLC LDVIWILVNE DKCRVPFYEL VRSNLQFLEN IPDDEALVSI IMEIHRRRDM  420
VCMHMQMLDQ HLHCPTFATH RFLSQSYPSI AGESVANLRY SPITYPSVLG EPLHGEDLAN  480
SIPKGGLDWE RALRCLRHAL CTTPSPDWWR RVLLVAPCYR QHPQQSSTPG AVFSPDMIGE  540
AVADRTIELL RLTNSETQCW QDWLLFADIF FFLMKSGCID FLDFVDKLAS RVTNSDQQIL  600
RSNHVTWLLA QIIRIEIVMN TLSSDPRKVE TTRKIISFHK EDKSLDPNNI SPQSILLDFI  660
SSSQTLRIWS FNTSIREHLN SDQLQKGKQI DEWWKQMTKA SGERMIDFTS LDERAMGMFW  720
VLSFTMAQPA CEAVMNWFTS VGVADLIQGP NLQPNERMTM MRETYPLSMS LLSGLSINLC  780
LKLAFQLEET IFLGQNVPSI AMVETYVRLL LITPHSLFRP HFTTLTQRSP SILSKSGVSL  840
LLLEILNYRL LPLYRYHGKS KALMYDVTKI ISMIKVKRGE HRLFRLAENL CMNLILSLRD  900
FFLVKKELKG PTEFTETLNR ITIISLAITM KTRGIAEVEH IIYLQPLLEQ IMATSQHTWS  960
EKTLRYFPPL IRDFLMGRMD KRGQAIQAWQ QAETTVINQC NQLLSPSAEP TYVMTYLSHS  1020
FPQHRQYLCA GAWMLMNGHL EINSANLARV LREFSPEEVT ANIYTMVDVL LHHIQLELQR  1080
GHQIQDLLSK AITNLAFFIW THELLPLDIL LLALIDRDDD PYALRLVINL LERPELQQRI  1140
KAFCTSRSPE HWLKNQPPKR VELQKALGNH LSGKERYPPF FDDIAARLLP VIPLIIYRLI  1200
ENDATDIADR VLAVYSTFLA FHPLRFTFVR DILAYFYGHL PSKLIVRILN VLGVSTKTPF  1260
SESFAQYLAS SNSSICPPPE YFANLLFGLV NNVIPPLSCK SKSNPSDAAG STARTTYNKP  1320
HTSSAGGISN SDGQRAFYQN QDPGSYTQLV LETAAIEILS LCVPASQIVS SLVQIIAHVQ  1380
AMLIQSNSGH GMSGGLGQNS GVPTSSGGGV EPVGANRPNT TASGINASNF VSRSGYSCQQ  1440
LSVLMIQACG LLLAQLPPEF HTLLYAEAAR IIKDCWWLAD SSRPVKELDS AVGYALLDPT  1500
WASQDNTSTA IGNIVALLHS FFSNLPHEWL ESTHTVIKHL RPVNSVAMLR IAFRILGPLL  1560
PRLAFARPLF MKTLALLFNV LGDVFGKNSQ ASPPVEASEI ADIIDFLHHA VMYEGQGGPV  1620
QSTSKPKLEI LTLCGKVMEI LRPDVQHLLS HLKTDPNSSV YAATHPKLLP PHSCTADYGR  1680
QYYIEVGFVN AEGSWLYTII GSTQADLIKH NKGERAVTQL LKDVDPLQTA VVLTLRRQRP  1740
RRELSPDYTC TRNSILEAWR ARRLAADVSD GLTPSRLRLA SAFPLLAASI NPRAAPEPLQ  1800
IKTRVSSSGS VHPSREIQIA SQIRDQRVMG RQPCCEKVGL KKGPWTADED QKLVTFLLSN  1860
GHCCWRLVPK LAGLLRCGKS CRLRWTNYLR PDLKRGLLSE EEEKLVIDLH EQLGNRWSKI  1920
AARLPGRTDN EIKNHWNTHI KKKLKKMGLD PVTHRPVMSL AQPDPLKQQQ QQQEPSVSGG  1980
TGADDKEEEE ETPTSAQPQG VACAASSASA VSSSCSSSAS ASAATPGADV DWPGLFEVDA  2040
ILDIDWAGLL SACGDDGGCS AIGVDMLFDQ CSDVGFDQDV WM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	2e-30	1840	1944	5	108	B-MYB
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1735	1742	RRQRPRRE

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity). {ECO:0000250}.

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	AK121868	0.0	AK121868.1 Oryza sativa Japonica Group cDNA clone:J033103L16, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015625114.1	0.0	mediator of RNA polymerase II transcription subunit 23 isoform X1
Swissprot	F4I4P3	0.0	MED23_ARATH; Mediator of RNA polymerase II transcription subunit 23
TrEMBL	A0A0D9YXV1	0.0	A0A0D9YXV1_9ORYZ; Uncharacterized protein
STRING	OGLUM02G32070.1	0.0	(Oryza glumipatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP7034	2	2

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66230.1	5e-79	myb domain protein 20

Publications ? help Back to Top
Mathur S,Vyas S,Kapoor S,Tyagi AK The Mediator complex in plants: structure, phylogeny, and expression profiling of representative genes in a dicot (Arabidopsis) and a monocot (rice) during reproduction and abiotic stress. Plant Physiol., 2011. 157(4): p. 1609-27 [PMID:22021418] Dolan WL,Dilkes BP,Stout JM,Bonawitz ND,Chapple C Mediator Complex Subunits MED2, MED5, MED16, and MED23 Genetically Interact in the Regulation of Phenylpropanoid Biosynthesis. Plant Cell, 2017. 29(12): p. 3269-3285 [PMID:29203634]