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

ORGLA04G0158100.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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

NAC

Protein Properties

Length: 278aa MW: 30762.3 Da PI: 6.4005

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA04G0158100.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	164.1	5e-51	10	137	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkev 92 lppGfrF P+deelv++yL kkv++++ + ++ evd++ ePw+Lp +k + +ewyfFs rd+kyatg+r+nratk+gyWkatgkd+ev ORGLA04G0158100.1 10 LPPGFRFYPSDEELVCHYLYKKVSNERASQ-GTLVEVDLHAREPWELPDVAKLTASEWYFFSFRDRKYATGSRTNRATKTGYWKATGKDREV 100 79***********************888.88***********77777889******************************** PP NAM 93 lsk.kgelvglkktLvfykgrapkgektdWvmheyrl 128 s ++++vg++ktLvfy+grap+g+k+ Wvmhe+rl ORGLA04G0158100.1 101 RSPaTRAVVGMRKTLVFYQGRAPNGVKSGWVMHEFRL 137 977788***************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.29E-60	8	156	IPR003441	NAC domain
PROSITE profile	PS51005	58.738	10	156	IPR003441	NAC domain
Pfam	PF02365	4.3E-28	11	137	IPR003441	NAC domain

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

Sequence ? help Back to Top
Protein Sequence Length: 278 aa Download sequence Send to blast
MGLRDIESTL PPGFRFYPSD EELVCHYLYK KVSNERASQG TLVEVDLHAR EPWELPDVAK 60 LTASEWYFFS FRDRKYATGS RTNRATKTGY WKATGKDREV RSPATRAVVG MRKTLVFYQG 120 RAPNGVKSGW VMHEFRLDSP HSPPKEDWVL CRVFQKSKGD GEQDNPTSAA SPAATFAGSS 180 QAAVPGQAAY SSDDHTGSSM GFAPRQNEIL DSSSHQLLNL AMLQCNSVLD HFPQEVNSSP 240 MMGLAGSIGI GNEYGFFYDT GFEETASLGG MMFPQGWS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	7e-50	1	156	4	165	NO APICAL MERISTEM PROTEIN
1ut4_B	7e-50	1	156	4	165	NO APICAL MERISTEM PROTEIN
1ut7_A	7e-50	1	156	4	165	NO APICAL MERISTEM PROTEIN
1ut7_B	7e-50	1	156	4	165	NO APICAL MERISTEM PROTEIN
4dul_A	7e-50	1	156	4	165	NAC domain-containing protein 19
4dul_B	7e-50	1	156	4	165	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator of STM and KNAT6. Involved in molecular mechanisms regulating shoot apical meristem (SAM) formation during embryogenesis and organ separation. Required for the fusion of septa of gynoecia along the length of the ovaries. Activates the shoot formation in callus in a STM-dependent manner. Seems to act as an inhibitor of cell division. {ECO:0000269\|PubMed:10079219, ECO:0000269\|PubMed:10750709, ECO:0000269\|PubMed:11245578, ECO:0000269\|PubMed:12163400, ECO:0000269\|PubMed:12492830, ECO:0000269\|PubMed:12610213, ECO:0000269\|PubMed:12787253, ECO:0000269\|PubMed:14617069, ECO:0000269\|PubMed:15202996, ECO:0000269\|PubMed:15294871, ECO:0000269\|PubMed:15500463, ECO:0000269\|PubMed:15723790, ECO:0000269\|PubMed:16798887, ECO:0000269\|PubMed:17122068, ECO:0000269\|PubMed:17287247, ECO:0000269\|PubMed:9212461}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA04G0158100.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By BRM, at the chromatin level, and conferring a very specific spatial expression pattern. Directly induced by ESR2 in response to cytokinins. Precise spatial regulation by post-transcriptional repression directed by the microRNA miR164. {ECO:0000269\|PubMed:15202996, ECO:0000269\|PubMed:15294871, ECO:0000269\|PubMed:15723790, ECO:0000269\|PubMed:16854978, ECO:0000269\|PubMed:17056621, ECO:0000269\|PubMed:17287247}.

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	AK062955	0.0	AK062955.1 Oryza sativa Japonica Group cDNA clone:001-109-C12, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015634235.1	0.0	protein CUP-SHAPED COTYLEDON 1
Swissprot	Q9FRV4	1e-62	NAC54_ARATH; Protein CUP-SHAPED COTYLEDON 1
TrEMBL	A0A0D3FXY4	0.0	A0A0D3FXY4_9ORYZ; Uncharacterized protein
TrEMBL	I1PN12	0.0	I1PN12_ORYGL; Uncharacterized protein
STRING	ORGLA04G0158100.1	0.0	(Oryza glaberrima)
STRING	OBART04G18700.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP697	38	166

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G28530.1	1e-82	NAC domain containing protein 74

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] Shinohara N,Ohbayashi I,Sugiyama M Involvement of rRNA biosynthesis in the regulation of CUC1 gene expression and pre-meristematic cell mound formation during shoot regeneration. Front Plant Sci, 2014. 5: p. 159 [PMID:24808900] Kamiuchi Y,Yamamoto K,Furutani M,Tasaka M,Aida M The CUC1 and CUC2 genes promote carpel margin meristem formation during Arabidopsis gynoecium development. Front Plant Sci, 2014. 5: p. 165 [PMID:24817871] Gonçalves B, et al. A conserved role for CUP-SHAPED COTYLEDON genes during ovule development. Plant J., 2015. 83(4): p. 732-42 [PMID:26119568] Cui X, et al. REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis. Nat. Genet., 2016. 48(6): p. 694-9 [PMID:27111035] Balkunde R,Kitagawa M,Xu XM,Wang J,Jackson D SHOOT MERISTEMLESS trafficking controls axillary meristem formation, meristem size and organ boundaries in Arabidopsis. Plant J., 2017. 90(3): p. 435-446 [PMID:28161901] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549] González-Carranza ZH, et al. HAWAIIAN SKIRT controls size and floral organ number by modulating CUC1 and CUC2 expression. PLoS ONE, 2017. 12(9): p. e0185106 [PMID:28934292]