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

Sobic.002G411000.1.p

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

ERF

Protein Properties

Length: 328aa MW: 34299.4 Da PI: 7.0576

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G411000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	56.3	7.9e-18	65	113	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 + GVr+++ +gr++AeIrdp++ + r++lg+f+ta+eAa a+++a+++++g Sobic.002G411000.1.p 65 FLGVRRRP-WGRYAAEIRDPTT---KERHWLGTFDTAQEAALAYDRAALSMKG 113 56****.******965...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51032	20.547	64	121	IPR001471	AP2/ERF domain
SMART	SM00380	1.4E-29	64	127	IPR001471	AP2/ERF domain
CDD	cd00018	5.42E-26	64	120	No hit	No description
Gene3D	G3DSA:3.30.730.10	5.5E-28	65	121	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.2E-7	65	76	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.1E-20	65	122	IPR016177	DNA-binding domain
Pfam	PF00847	2.9E-11	67	113	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.2E-7	87	103	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010102	Biological Process	lateral root morphogenesis
GO:0010432	Biological Process	bract development
GO:0010451	Biological Process	floral meristem growth
GO:0010582	Biological Process	floral meristem determinacy
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 328 aa Download sequence Send to blast
MMNTRGSGSG SSSGSNQTMM AFSDHPPKPA TAASGGQPQP SPPSSPSERP PAGRGRRRAQ 60 EPGRFLGVRR RPWGRYAAEI RDPTTKERHW LGTFDTAQEA ALAYDRAALS MKGAQARTNF 120 VYTHAAYNYP PFLAPFHHGQ QPSSYAHAPS SVQHQYGGGV GAGAPHIASY GHHHYHHQAG 180 SASAAAAGGA SSGECSSTMP VPVERADGTL LLDRSGGGHH HHHEFLFASA DDNSGYLSSV 240 VPESCLRPRS SAAAVEDLRR YSDADAYGMG MGLREDVDDL AQMVAGFWGG AGDADQLCGF 300 PSGGAGDSMV ASSQGSDGYS PFSFLSH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wx9_A	4e-18	61	120	11	71	Ethylene-responsive transcription factor ERF096
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed at the time of rudimentary glumes differentiation in a half-ring domain at the base of the rudimentary glume primordium.

Functional Description ? help Back to Top
Source	Description
UniProt	Required to prevent the formation of axillary meristems within the spikelet meristem and permit the subsequent establishment of floral meristem identity (PubMed:12835399, PubMed:14503923). Mediates the transition from spikelet to floret meristem (PubMed:14503923). Determines the transition from panicle branching to spikelet formation. May specify floral organ identity by regulating the class B genes (Agamous-like genes) MADS6 and MADS17, as well as class E genes MADS1, MADS7 and MADS8 in floral meristem (PubMed:26744119). Possesses transactivation activity (PubMed:12835399). {ECO:0000269\|PubMed:12835399, ECO:0000269\|PubMed:14503923, ECO:0000269\|PubMed:26744119}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00520	DAP	Transfer from AT5G18560	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G411000.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY178191	1e-162	AY178191.1 Zea mays branched silkless1 (bd1) mRNA, complete cds.
GenBank	AY196003	1e-162	AY196003.1 Zea mays branched silkless1 mRNA, complete cds.
GenBank	EU969557	1e-162	EU969557.1 Zea mays clone 332110 branched silkless1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002463362.2	0.0	ethylene-responsive transcription factor ERF086
Swissprot	Q8H3Q1	1e-114	FZP_ORYSJ; Ethylene-responsive transcription factor FZP
TrEMBL	A0A1B6QG58	0.0	A0A1B6QG58_SORBI; Uncharacterized protein
STRING	Sb02g042400.1	1e-153	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP10525	28	38
Representative plant	OGRP6	16	1718

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18560.1	3e-34	ERF family protein

Link Out ? help Back to Top
Phytozome	Sobic.002G411000.1.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Zhu QH,Hoque MS,Dennis ES,Upadhyaya NM Ds tagging of BRANCHED FLORETLESS 1 (BFL1) that mediates the transition from spikelet to floret meristem in rice (Oryza sativa L). BMC Plant Biol., 2003. 3: p. 6 [PMID:14503923] Liu HQ, et al. [Towards the positional cloning of a spikelet identity gene frizzle panicle (FZP) in rice (Oryza sativa L.)]. Yi Chuan Xue Bao, 2003. 30(9): p. 811-6 [PMID:14577371] Jang S, et al. The OsFOR1 gene encodes a polygalacturonase-inhibiting protein (PGIP) that regulates floral organ number in rice. Plant Mol. Biol., 2003. 53(3): p. 357-69 [PMID:14750524] Rossini L, et al. Candidate genes for barley mutants involved in plant architecture: an in silico approach. Theor. Appl. Genet., 2006. 112(6): p. 1073-85 [PMID:16501940] Yi G, et al. Morphological and molecular characterization of a new frizzy panicle mutant, "fzp-9(t)", in rice (Oryza sativa L.). Hereditas, 2005. 142(2005): p. 92-7 [PMID:16970618] Duan Y, et al. Genetic analysis and mapping of gene fzp(t) controlling spikelet differentiation in rice. Sci. China, C, Life Sci., 2003. 46(3): p. 328-34 [PMID:18763148] Routledge AP, et al. Magnaporthe grisea interactions with the model grass Brachypodium distachyon closely resemble those with rice (Oryza sativa). Mol. Plant Pathol., 2004. 5(4): p. 253-65 [PMID:20565594] Lee DY,An G Two AP2 family genes, supernumerary bract (SNB) and Osindeterminate spikelet 1 (OsIDS1), synergistically control inflorescence architecture and floral meristem establishment in rice. Plant J., 2012. 69(3): p. 445-61 [PMID:22003982] Derbyshire P,Byrne ME MORE SPIKELETS1 is required for spikelet fate in the inflorescence of Brachypodium. Plant Physiol., 2013. 161(3): p. 1291-302 [PMID:23355632] Poursarebani N, et al. The Genetic Basis of Composite Spike Form in Barley and 'Miracle-Wheat'. Genetics, 2015. 201(1): p. 155-65 [PMID:26156223] Bai X, et al. Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice. Sci Rep, 2016. 6: p. 19022 [PMID:26744119] Ma X, et al. Genomic structure analysis of a set of Oryza nivara introgression lines and identification of yield-associated QTLs using whole-genome resequencing. Sci Rep, 2016. 6: p. 27425 [PMID:27251022]