PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

MIKC_MADS

Protein Properties

Length: 197aa MW: 22426 Da PI: 7.937

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_04637.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	82.3	3e-26	9	57	1	49
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 krien rqvtf+kRr+g+lKKA+ELSvLCdae+ v+ifs++gkl+e Rsa1.0_04637.1_g00002.1 9 KRIENPVHRQVTFCKRRTGLLKKAKELSVLCDAEIGVVIFSPQGKLFEL 57 79********************************************996 PP
2	K-box	52.8	1.7e-18	92	170	11	89
K-box 11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqe 89 + ++ + e++ Lk+eie+Lq+ +R + G + + ++l+eL Le++Le +++iRs K+e++l++i+ l++k +e+++ Rsa1.0_04637.1_g00002.1 92 KPQNHDPKDEVNVLKQEIEMLQKGIRYMFGGGDGAMNLEELLLLEKHLEYWISQIRSAKMEIMLQEIQSLRNKIEENNN 170 455667799****************************************************************998765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.1E-36	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	2.75E-28	1	74	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	29.506	1	61	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
CDD	cd00265	6.65E-39	3	72	No hit	No description
Pfam	PF00319	4.1E-24	10	56	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	1.9E-17	94	168	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	11.481	95	183	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: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: 197 aa Download sequence Send to blast
MVRGKIQLKR IENPVHRQVT FCKRRTGLLK KAKELSVLCD AEIGVVIFSP QGKLFELATK 60 GTMEGVIDKY MKCTSGGCSS SSATYTAQEQ LKPQNHDPKD EVNVLKQEIE MLQKGIRYMF 120 GGGDGAMNLE ELLLLEKHLE YWISQIRSAK MEIMLQEIQS LRNKIEENNN SILYANLATV 180 ETNYSYPLAM PNEIFQF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3mu6_A	2e-16	3	70	2	68	Myocyte-specific enhancer factor 2A
3mu6_B	2e-16	3	70	2	68	Myocyte-specific enhancer factor 2A
3mu6_C	2e-16	3	70	2	68	Myocyte-specific enhancer factor 2A
3mu6_D	2e-16	3	70	2	68	Myocyte-specific enhancer factor 2A
5f28_A	2e-16	1	70	1	69	MEF2C
5f28_B	2e-16	1	70	1	69	MEF2C
5f28_C	2e-16	1	70	1	69	MEF2C
5f28_D	2e-16	1	70	1	69	MEF2C
Search in ModeBase

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	Rsa1.0_04637.1_g00002.1

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	AK228190	0.0	AK228190.1 Arabidopsis thaliana mRNA for MADS-box protein AGL12, complete cds, clone: RAFL14-63-K22.
GenBank	ATU20193	0.0	U20193.1 Arabidopsis thaliana MADS-box protein AGL12 (AGL12) mRNA, complete cds.
GenBank	BT006157	0.0	BT006157.1 Arabidopsis thaliana clone RAFL17-04-C08 (R50439) putative MADS-box protein (At1g71692) mRNA, complete cds.
GenBank	BT008332	0.0	BT008332.1 Arabidopsis thaliana At1g71692 gene, complete cds.
GenBank	BT008524	0.0	BT008524.1 Arabidopsis thaliana clone U50439 putative MADS-box protein (At1g71692) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010427993.1	1e-118	PREDICTED: agamous-like MADS-box protein AGL12
Swissprot	Q38841	1e-117	AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBL	A0A087HHI5	1e-116	A0A087HHI5_ARAAL; Uncharacterized protein
STRING	XP_010427993.1	1e-117	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7052	26	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G71692.1	1e-108	AGAMOUS-like 12

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]