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

Medtr5g005600.1

Common Name

MTR_5g005600

Organism

Medicago truncatula

Taxonomic ID

3880

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago

Family

HD-ZIP

Protein Properties

Length: 722aa MW: 79894.1 Da PI: 7.8425

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Medtr5g005600.1	genome	Mt	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	55.7	8.3e-18	46	101	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +r+ +++t++q++e+ ++F+++++p+ ++r+eL+ ++gL+ +q+k+WFqNrR+ k Medtr5g005600.1 46 KRTYRRHTQQQIDEMDTFFKQCPNPNDAQRRELSLRTGLDPTQIKFWFQNRRTSLK 101 577789**********************************************9766 PP
2	START	163.2	2e-51	252	459	19	204
TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT......EEEEEE CS START 19 pgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg......galqlm 94 p+W e++ng+e+++ f+++++ + e +++s+vv ++++lv +l+d++ qW++++ +a+tlev+s+g galq+m Medtr5g005600.1 252 PLWIPTNyvtEILNGEEYMKYFPRGNGpntcgLRLEGSKESVVVMINAPDLVDILMDVN-QWSNMFCgivsRAATLEVLSTGvggnydGALQVM 344 566655556799**********999*9**********************.**99********************** PP EEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHH CS START 95 vaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe....sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrs 183 +ae+q++sp+vp R fvRy++ +++g wv++dvS+ + + ss R +++pSg+lie+++ng +kvtw+e+v+++++++++++++ Medtr5g005600.1 345 TAEFQVPSPHVPtRQNHFVRYCKLHPDGIWVVADVSLHLLNAASAssssSSTASRTNRRPSGCLIETLPNGLTKVTWIENVEVDDQVVQNIYKP 438 *********************************98888776655566778************************************ PP HHHHHHHHHHHHHHHHTXXXX CS START 184 lvksglaegaktwvatlqrqc 204 lv+sgla+gak+wvatl+rq Medtr5g005600.1 439 LVNSGLAFGAKRWVATLHRQS 459 ****************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	8.9E-18	23	101	IPR009057	Homeodomain-like
SuperFamily	SSF46689	3.97E-17	30	101	IPR009057	Homeodomain-like
PROSITE profile	PS50071	15.645	43	103	IPR001356	Homeobox domain
SMART	SM00389	5.9E-17	45	107	IPR001356	Homeobox domain
Pfam	PF00046	3.0E-15	46	101	IPR001356	Homeobox domain
CDD	cd00086	2.65E-15	53	103	No hit	No description
PROSITE pattern	PS00027	0	78	101	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	31.17	224	464	IPR002913	START domain
SuperFamily	SSF55961	1.49E-28	228	461	No hit	No description
CDD	cd08875	3.63E-97	228	459	No hit	No description
SMART	SM00234	1.1E-48	233	461	IPR002913	START domain
Pfam	PF01852	2.7E-42	262	459	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.5E-4	294	459	IPR023393	START-like domain
SuperFamily	SSF55961	7.33E-20	479	713	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 722 aa Download sequence Send to blast
MFNTPHQKHS KNMYQNRSTR TREEANQMNM EAPSSDDQES NQRRRKRTYR RHTQQQIDEM 60 DTFFKQCPNP NDAQRRELSL RTGLDPTQIK FWFQNRRTSL KVQTDRDENE LLKIENEKLR 120 DELDRYKGAI STTCKVCGSS SNAGEMSHEE QQLRLENALL RKELERFVGE TPTDSRANIT 180 SSNNSTHVAS HSTDFGVAGG NNGASHRMVG EGLSVGGSSV QIKGLNEKQK IVELAVVGMD 240 ELTKLARTYG PPLWIPTNYV TEILNGEEYM KYFPRGNGPN TCGLRLEGSK ESVVVMINAP 300 DLVDILMDVN QWSNMFCGIV SRAATLEVLS TGVGGNYDGA LQVMTAEFQV PSPHVPTRQN 360 HFVRYCKLHP DGIWVVADVS LHLLNAASAS SSSSSTASRT NRRPSGCLIE TLPNGLTKVT 420 WIENVEVDDQ VVQNIYKPLV NSGLAFGAKR WVATLHRQSD RLFFRTATNV PREHHVRLTP 480 EGKKSILNLA ERLVASFSTS IGSSTTHAWT KVPGNGPEVV MVMTKRYIDE SSIDKPVSVV 540 LSAATSFWLP VPPRRVFDFL RDQNTRKHWD ILSAGGIVHE LAHISNGRDS GNYVSLFRIT 600 SENSEQSDVV VLQENCTDVT GSYVVYAPVQ IPTMHEILNG GDSSRLTLLP SGFAIFPDGC 660 ITNGGPIMNV GSGGSLVTVA FQIIVDSIPH ARLALGSITT VNTLIKNTVE RIRTAVMPNG 720 I*

Sequence ? help Back to Top

Protein Sequence Length: 722 aa Download sequence Send to blast

MFNTPHQKHS KNMYQNRSTR TREEANQMNM EAPSSDDQES NQRRRKRTYR RHTQQQIDEM  60
DTFFKQCPNP NDAQRRELSL RTGLDPTQIK FWFQNRRTSL KVQTDRDENE LLKIENEKLR  120
DELDRYKGAI STTCKVCGSS SNAGEMSHEE QQLRLENALL RKELERFVGE TPTDSRANIT  180
SSNNSTHVAS HSTDFGVAGG NNGASHRMVG EGLSVGGSSV QIKGLNEKQK IVELAVVGMD  240
ELTKLARTYG PPLWIPTNYV TEILNGEEYM KYFPRGNGPN TCGLRLEGSK ESVVVMINAP  300
DLVDILMDVN QWSNMFCGIV SRAATLEVLS TGVGGNYDGA LQVMTAEFQV PSPHVPTRQN  360
HFVRYCKLHP DGIWVVADVS LHLLNAASAS SSSSSTASRT NRRPSGCLIE TLPNGLTKVT  420
WIENVEVDDQ VVQNIYKPLV NSGLAFGAKR WVATLHRQSD RLFFRTATNV PREHHVRLTP  480
EGKKSILNLA ERLVASFSTS IGSSTTHAWT KVPGNGPEVV MVMTKRYIDE SSIDKPVSVV  540
LSAATSFWLP VPPRRVFDFL RDQNTRKHWD ILSAGGIVHE LAHISNGRDS GNYVSLFRIT  600
SENSEQSDVV VLQENCTDVT GSYVVYAPVQ IPTMHEILNG GDSSRLTLLP SGFAIFPDGC  660
ITNGGPIMNV GSGGSLVTVA FQIIVDSIPH ARLALGSITT VNTLIKNTVE RIRTAVMPNG  720
I*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Specifically expressed in the layer 1 (L1) of shoot meristems. {ECO:0000269\|PubMed:12505995}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269\|PubMed:12505995}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Medtr5g005600.1

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	AC123975	0.0	AC123975.16 Medicago truncatula clone mth2-12m13, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003610661.2	0.0	homeobox-leucine zipper protein MERISTEM L1
Swissprot	Q93V99	0.0	PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBL	G7K111	0.0	G7K111_MEDTR; Homeobox leucine zipper protein
STRING	AES93619	0.0	(Medicago truncatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1508	34	99

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G04890.1	0.0	protodermal factor 2

Link Out ? help Back to Top
Phytozome	Medtr5g005600.1
Entrez Gene	11437324

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Young ND, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, 2011. 480(7378): p. 520-4 [PMID:22089132] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]