PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

MIKC_MADS

Protein Properties

Length: 203aa MW: 23371.2 Da PI: 8.632

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.013G102600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	81.2	6.8e-26	9	58	1	50
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 krien+ rqvtf+kRr g+lKKA+ELSvLCdae+ v ifs +gklye + Potri.013G102600.1 9 KRIENSVHRQVTFCKRRSGLLKKAKELSVLCDAEIGVFIFSAHGKLYELA 58 79*********************************************965 PP
2	K-box	65.1	2.5e-22	90	175	15	100

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	29.857	1	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	9.55E-28	1	74	IPR002100	Transcription factor, MADS-box
SMART	SM00432	2.3E-35	1	60	IPR002100	Transcription factor, MADS-box
CDD	cd00265	3.17E-39	2	76	No hit	No description
PRINTS	PR00404	2.8E-27	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.5E-22	10	56	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.8E-27	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.8E-27	38	59	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS51297	11.66	89	179	IPR002487	Transcription factor, K-box
Pfam	PF01486	1.5E-22	90	173	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0048364	Biological Process	root development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 203 aa Download sequence Send to blast
MARGKVQMKR IENSVHRQVT FCKRRSGLLK KAKELSVLCD AEIGVFIFSA HGKLYELATK 60 GTMQGLIERY MKSSRGTQPE PAAIETQPDM DVKEEINMLK QEIEILQKGL RYMFGGRAAE 120 MTLDELIELE KHLEIWIYQI RSTKMDIMFK EIQQLRNKEG ILKAANQYLQ DKVEENIVIT 180 NSAPITTNIP YPLTIQNEIF QY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	2e-15	1	90	1	84	MEF2 CHIMERA
6byy_B	2e-15	1	90	1	84	MEF2 CHIMERA
6byy_C	2e-15	1	90	1	84	MEF2 CHIMERA
6byy_D	2e-15	1	90	1	84	MEF2 CHIMERA
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During embryo development, expressed in a punctate pattern from the globular stage to the torpedo stage. {ECO:0000269\|PubMed:11855641}.
Uniprot	TISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). In root meristem, expressed in external cells of columella, lateral root cap and atrichoblasts. In mature root, expressed in the central cylinder (PubMed:11855641). Expressed in leaf vasculature, young floral meristems and nectaries (PubMed:18203871). {ECO:0000269\|PubMed:11855641, ECO:0000269\|PubMed:18203871, ECO:0000269\|PubMed:7549482}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269\|PubMed:18203871}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.013G102600.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin in root phloem. {ECO:0000269\|PubMed:18203871}.

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	DQ518914	0.0	DQ518914.1 Populus tomentosa MADS box transcription factor (MADS2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006376144.2	1e-149	agamous-like MADS-box protein AGL12 isoform X1
Swissprot	Q38841	5e-84	AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBL	A0A2K1Y3T0	1e-147	A0A2K1Y3T0_POPTR; Uncharacterized protein
STRING	POPTR_0019s10540.1	1e-119	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF7566	31	44
Representative plant	OGRP16	17	761

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G71692.1	2e-86	AGAMOUS-like 12

Link Out ? help Back to Top
Phytozome	Potri.013G102600.1

Publications ? help Back to Top
Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox. Plant Physiol., 2004. 136(1): p. 2621-32 [PMID:15375207] Pacheco-Escobedo MA, et al. Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm. Ann. Bot., 2018. [PMID:27358290] García-Cruz KV, et al. The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components. Ann. Bot., 2018. [PMID:27474508]