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

LPERR07G16470.1

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

C3H

Protein Properties

Length: 671aa MW: 71123.1 Da PI: 6.8909

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LPERR07G16470.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.8	3.7e-08	278	300	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 ++C++f+r G C+ Gd+C F+Hg LPERR07G16470.1 278 VPCPNFRRPGGCPSGDSCEFSHG 300 79********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.25.40.20	1.7E-15	66	148	IPR020683	Ankyrin repeat-containing domain
Pfam	PF12796	1.3E-8	66	136	IPR020683	Ankyrin repeat-containing domain
SuperFamily	SSF48403	2.78E-13	67	147	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50297	16.228	69	139	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	2.7	69	99	IPR002110	Ankyrin repeat
CDD	cd00204	4.04E-12	71	147	No hit	No description
PROSITE profile	PS50088	12.529	104	139	IPR002110	Ankyrin repeat
SMART	SM00248	0.0044	104	136	IPR002110	Ankyrin repeat
PROSITE profile	PS50103	13.995	274	302	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.6E-4	274	301	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-5	275	303	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.7E-6	278	300	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.4E-6	278	301	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.6E-4	306	339	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	21	310	333	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 671 aa Download sequence Send to blast
MGELADLVVV PPQQPPLAGG RRDMLAALLE FAAADDVDGM KAALAEGGEE AAELADGVGL 60 WYGRSKAYEP RTPLMVAATY GSAAVVALLL GLGCVDVNRR PGVDGATALH CAASGGSRNA 120 VAVVKLLLAA GADPATPDSA GRFAADVILA PPASPDALGD LEVLLGRRRA LAVATSVASG 180 SSSPPLSSSP DEGNRSPSSR SSSLSPITVD RGKKEYPVDP TLPDIKSSVY ASDEFRMFAF 240 KVRPCSRAYS HDWTECPFVH PGENARRRDP RKHPYTAVPC PNFRRPGGCP SGDSCEFSHG 300 VFESWLHPSQ YRTRLCKEGA ACARRICFFA HDEDELRHVP HNNGVGLLSP RASASIDMTA 360 AAALGLLPGS PTRHFAPPPV SPSAGSNGGA AAAHWLQGSR LRSSFNARDA AVDDLGMLLD 420 WESQYLGALC LPPSSRPQPR LSTGLSIRPT IASSSIEDMF ASDMSMSPRF PNDQGHSVYS 480 PAHKSALLNK LHQQKGLLSP VNTNRMYSPR ALDPSALAHS PFGGMSPRSP RTMEPTSPLS 540 ARLGATATQR EMFEQLASLN KHQLPSVGSP RNSTASWGAV GSPMGKVDWG VDSDELVRLR 600 RPAQPGLGEE ETDMSWGQSL VNHAELNGKR GEIGMAGASA LMNRPDLNNQ GDLLDQTVIG 660 AWLEQMHLDQ K

Sequence ? help Back to Top

Protein Sequence Length: 671 aa Download sequence Send to blast

MGELADLVVV PPQQPPLAGG RRDMLAALLE FAAADDVDGM KAALAEGGEE AAELADGVGL  60
WYGRSKAYEP RTPLMVAATY GSAAVVALLL GLGCVDVNRR PGVDGATALH CAASGGSRNA  120
VAVVKLLLAA GADPATPDSA GRFAADVILA PPASPDALGD LEVLLGRRRA LAVATSVASG  180
SSSPPLSSSP DEGNRSPSSR SSSLSPITVD RGKKEYPVDP TLPDIKSSVY ASDEFRMFAF  240
KVRPCSRAYS HDWTECPFVH PGENARRRDP RKHPYTAVPC PNFRRPGGCP SGDSCEFSHG  300
VFESWLHPSQ YRTRLCKEGA ACARRICFFA HDEDELRHVP HNNGVGLLSP RASASIDMTA  360
AAALGLLPGS PTRHFAPPPV SPSAGSNGGA AAAHWLQGSR LRSSFNARDA AVDDLGMLLD  420
WESQYLGALC LPPSSRPQPR LSTGLSIRPT IASSSIEDMF ASDMSMSPRF PNDQGHSVYS  480
PAHKSALLNK LHQQKGLLSP VNTNRMYSPR ALDPSALAHS PFGGMSPRSP RTMEPTSPLS  540
ARLGATATQR EMFEQLASLN KHQLPSVGSP RNSTASWGAV GSPMGKVDWG VDSDELVRLR  600
RPAQPGLGEE ETDMSWGQSL VNHAELNGKR GEIGMAGASA LMNRPDLNNQ GDLLDQTVIG  660
AWLEQMHLDQ K

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5elk_A	4e-11	240	333	14	118	RING finger protein unkempt homolog
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LPERR07G16470.1

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	CP012615	0.0	CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006657856.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 50
Refseq	XP_015695270.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 50
Swissprot	Q84SL2	0.0	C3H50_ORYSJ; Zinc finger CCCH domain-containing protein 50
TrEMBL	A0A0D9X0H7	0.0	A0A0D9X0H7_9ORYZ; Uncharacterized protein
STRING	LPERR07G16470.1	0.0	(Leersia perrieri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP823	37	126

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G41900.1	1e-127	CCCH-type zinc finger protein with ARM repeat domain

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]