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

LPERR03G22840.1

Organism

Leersia perrieri

Taxonomic ID

77586

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Leersia

Family

NF-YA

Protein Properties

Length: 843aa MW: 93230.2 Da PI: 7.6767

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LPERR03G22840.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	45.1	3.2e-14	173	225	1	52
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrk..pylheSRhkhAlrRpR 52 d+p+YVNaKQy++Il+RR +Rak+++e++l k+rk p h S + rR+R LPERR03G22840.1 173 DAPIYVNAKQYEGILRRRRARAKAQSENRL-VKGRKgsPSPHRSSRPFNWRRRR 225 68****************************.99998445667776666777776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	6.0E-11	171	234	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	19.044	172	234	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	3.6E-11	175	226	IPR001289	Nuclear transcription factor Y subunit A
SuperFamily	SSF52540	2.87E-36	411	491	IPR027417	P-loop containing nucleoside triphosphate hydrolase
Gene3D	G3DSA:3.40.50.300	2.5E-38	412	494	IPR027417	P-loop containing nucleoside triphosphate hydrolase
CDD	cd01857	1.82E-74	412	621	No hit	No description
PROSITE profile	PS51721	34.773	413	621	IPR030378	Circularly permuted (CP)-type guanine nucleotide-binding (G) domain
SuperFamily	SSF52540	2.87E-36	531	645	IPR027417	P-loop containing nucleoside triphosphate hydrolase
Gene3D	G3DSA:3.40.50.300	2.5E-38	538	622	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PRINTS	PR00326	9.7E-6	566	586	IPR006073	GTP binding domain
Pfam	PF01926	4.8E-14	566	627	IPR006073	GTP binding domain
PRINTS	PR00326	9.7E-6	612	627	IPR006073	GTP binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006364	Biological Process	rRNA processing
GO:0048825	Biological Process	cotyledon development
GO:0090070	Biological Process	positive regulation of ribosome biogenesis
GO:2000012	Biological Process	regulation of auxin polar transport
GO:0005730	Cellular Component	nucleolus
GO:0005829	Cellular Component	cytosol
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005525	Molecular Function	GTP binding
GO:0043022	Molecular Function	ribosome binding

Sequence ? help Back to Top
Protein Sequence Length: 843 aa Download sequence Send to blast
MTTTTAMLSF KQSHERFGHG GAGHQQQHQP WWAGSQLLYG EAPPEEALRG DGGQFQVVPG 60 GRAALDPAAA PPPEPEKTAV PAMPKRGEVL KFSVFSGNLE PGDTGEKNRE HSATIAMQSP 120 LPEYNGRFEL GLGQSMVSPN YPCIDQCYGL VTTYAMKSMS GGRMLLPVNA AADAPIYVNA 180 KQYEGILRRR RARAKAQSEN RLVKGRKGSP SPHRSSRPFN WRRRRDCSSS LLPLRPCLLV 240 AMAGGGGGGG GRKGQGEGLG RALVRQRNKA AAAAKERGHA LALARRARQP LESVIEVSDI 300 DAVLQRAAEA DLLLADGDDD AHETLSAAPG SGLIDLDGAV ETEERRWMRE EQEALHAGSL 360 KVPRRPPWSP QMTVEELDAN ERRAFLEWRR NLARLEENEK LVLTPFEKNI DIWRQLWRVL 420 ERSDLLVMVV DARDPLFYRC PDLEVYAQEI DEHKRTLLLV NKADLLPLNV RQRWAEYFKQ 480 HDILYLFWSA KAATADLEGK KLSSYSMEDW NTPDLDTKIY GRVELLVRLQ GEAEYIVNQK 540 GALRAAENHE SSPPDSVSTR PKHVVVGFVG YPNVGKSSTI NALVGQKRTG VTSTPGKTKH 600 FQTLIISEEL ILCDCPGLVF PSFSSSRHEM VACGVLPIDR MTKHRGAIQV VANRVPRHVL 660 EQIYKITLPK PKAYEQSSRP PTAAELLRAY CTSRGHVSHA GLPDETRAAR QILKDYLDGK 720 IPHFELPPGD TDTETDPEET TDLEGSSTEV AATTDHCASD EQDEEISQAD PNISHVLSDL 780 ESFDLGSGVS KNSTKKKEPS YKHHKKPQRK KDRSWRVGND DADGSGVVRV FQKPAVNFAT 840 VTG

Sequence ? help Back to Top

Protein Sequence Length: 843 aa Download sequence Send to blast

MTTTTAMLSF KQSHERFGHG GAGHQQQHQP WWAGSQLLYG EAPPEEALRG DGGQFQVVPG  60
GRAALDPAAA PPPEPEKTAV PAMPKRGEVL KFSVFSGNLE PGDTGEKNRE HSATIAMQSP  120
LPEYNGRFEL GLGQSMVSPN YPCIDQCYGL VTTYAMKSMS GGRMLLPVNA AADAPIYVNA  180
KQYEGILRRR RARAKAQSEN RLVKGRKGSP SPHRSSRPFN WRRRRDCSSS LLPLRPCLLV  240
AMAGGGGGGG GRKGQGEGLG RALVRQRNKA AAAAKERGHA LALARRARQP LESVIEVSDI  300
DAVLQRAAEA DLLLADGDDD AHETLSAAPG SGLIDLDGAV ETEERRWMRE EQEALHAGSL  360
KVPRRPPWSP QMTVEELDAN ERRAFLEWRR NLARLEENEK LVLTPFEKNI DIWRQLWRVL  420
ERSDLLVMVV DARDPLFYRC PDLEVYAQEI DEHKRTLLLV NKADLLPLNV RQRWAEYFKQ  480
HDILYLFWSA KAATADLEGK KLSSYSMEDW NTPDLDTKIY GRVELLVRLQ GEAEYIVNQK  540
GALRAAENHE SSPPDSVSTR PKHVVVGFVG YPNVGKSSTI NALVGQKRTG VTSTPGKTKH  600
FQTLIISEEL ILCDCPGLVF PSFSSSRHEM VACGVLPIDR MTKHRGAIQV VANRVPRHVL  660
EQIYKITLPK PKAYEQSSRP PTAAELLRAY CTSRGHVSHA GLPDETRAAR QILKDYLDGK  720
IPHFELPPGD TDTETDPEET TDLEGSSTEV AATTDHCASD EQDEEISQAD PNISHVLSDL  780
ESFDLGSGVS KNSTKKKEPS YKHHKKPQRK KDRSWRVGND DADGSGVVRV FQKPAVNFAT  840
VTG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6n8n_W	1e-103	291	728	65	503	Large subunit GTPase 1
6n8o_W	1e-103	291	728	65	503	Large subunit GTPase 1
6qik_o	1e-103	291	728	65	503	Large subunit GTPase 1
6qtz_o	1e-103	291	728	65	503	Large subunit GTPase 1
6ri5_o	1e-103	291	728	65	503	Large subunit GTPase 1
6rzz_o	1e-103	291	728	65	503	Large subunit GTPase 1
6s05_o	1e-103	291	728	65	503	Large subunit GTPase 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	GTPase involved in ribosome biogenesis (Probable). Binds to 23S rRNA and associates with 60S pre-ribosomes (PubMed:25319368). Involved in early cotyledon and leaf development (PubMed:25319368). {ECO:0000269\|PubMed:25319368}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LPERR03G22840.1

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	AK103649	0.0	AK103649.1 Oryza sativa Japonica Group cDNA clone:J033135D01, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015689993.1	0.0	PREDICTED: GTPase LSG1-1-like, partial
Swissprot	Q9SJF1	0.0	LSG12_ARATH; GTPase LSG1-2
TrEMBL	A0A0D9VWW4	0.0	A0A0D9VWW4_9ORYZ; Uncharacterized protein
STRING	LPERR03G22840.1	0.0	(Leersia perrieri)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06510.3	1e-14	nuclear factor Y, subunit A10

Publications ? help Back to Top
Hill TA,Broadhvest J,Kuzoff RK,Gasser CS Arabidopsis SHORT INTEGUMENTS 2 is a mitochondrial DAR GTPase. Genetics, 2006. 174(2): p. 707-18 [PMID:16849600] Weis BL,Missbach S,Marzi J,Bohnsack MT,Schleiff E The 60S associated ribosome biogenesis factor LSG1-2 is required for 40S maturation in Arabidopsis thaliana. Plant J., 2014. 80(6): p. 1043-56 [PMID:25319368] Zhao H, et al. The Arabidopsis gene DIG6 encodes a large 60S subunit nuclear export GTPase 1 that is involved in ribosome biogenesis and affects multiple auxin-regulated development processes. J. Exp. Bot., 2015. 66(21): p. 6863-75 [PMID:26272902] Fu G,Melville S,Brewster S,Warner J,Barker DC Analysis of the genomic organisation of a small chromosome of Leishmania braziliensis M2903 reveals two genes encoding GTP-binding proteins, one of which belongs to a new G-protein family and is an antigen. Gene, 1998. 210(2): p. 325-33 [PMID:9573393]