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

ORUFI06G17650.1

Organism

Oryza rufipogon

Taxonomic ID

4529

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

C3H

Protein Properties

Length: 640aa MW: 72396.8 Da PI: 6.8252

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORUFI06G17650.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	25.7	2e-08	80	105	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++ + C+++ ++G Ck+G rC ++H+ ORUFI06G17650.1 80 PGVPDCSYYVEFGSCKFGMRCLYNHP 105 5789*********************8 PP
2	zf-CCCH	24.2	5.8e-08	125	147	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 C +++r+G CkyG +C+F+H+p ORUFI06G17650.1 125 DCLHYLRFGRCKYGMNCRFNHPP 147 699******************96 PP
3	zf-CCCH	35	2.3e-11	187	212	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++t lC++++ G+Ck+G++CkF+H+ ORUFI06G17650.1 187 PGTGLCSYYMNRGICKFGSNCKFHHP 212 5799*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.0014	79	106	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.85	79	107	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-5	81	105	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.882	120	148	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0079	120	147	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.96E-5	122	150	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-5	125	147	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-5	186	213	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.507	186	214	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-6	187	213	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.7E-9	188	212	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.7E-5	189	211	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF48371	3.17E-33	402	585	IPR016024	Armadillo-type fold
Gene3D	G3DSA:1.25.40.180	2.0E-32	405	564	IPR016021	MIF4G-like domain
SMART	SM00543	2.0E-10	410	630	IPR003890	MIF4G-like, type 3
Pfam	PF02854	6.5E-25	410	565	IPR003890	MIF4G-like, type 3

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003723	Molecular Function	RNA binding
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 640 aa Download sequence Send to blast
MMQILCECCN SDHRSSSTPM ATTTSSSASD PAAISPTPSQ QHASSTVKTL DDRRPAGTSS 60 SAGETEPKAA VEPQEYPRRP GVPDCSYYVE FGSCKFGMRC LYNHPAKHAG GCDKLEHPQR 120 PGEHDCLHYL RFGRCKYGMN CRFNHPPDRL PQQQVYFPWK ACHCHHSEGK SEAEHVKLNF 180 LGLPLRPGTG LCSYYMNRGI CKFGSNCKFH HPNSGSGHEK WDGSLQTNQI SSGVNIYSVL 240 DHGELNEQPV PSKDDFQRGN SCFQPAEQIR YTRDQLLKLR ETVDVPKDIM KLIQDINVEL 300 RAEDESRAPN ETNYVPTLSY KRFQETDSHD WHSRSLQTPV VAEEEKSQDD TREAKEPYAL 360 GWKQKEFNKQ DQKSFQSDSK AQAGPTLALH KAEDPWSIQR STVPEKYKVL KTVKGILNLL 420 TPEKFDILKD QLIEAGITRT DILKDVIDLI LEKAVAEPTL CPMYAQFCSY LNENITAFPP 480 KDTHCEQITF KQALSDKCQQ AFEIARNVRA DIYKLTGREQ EMERRDKERL VKHQILGKIR 540 LIRDLLKQKM VPDKIVHHIA QAVTDCENFH FEPLENVDLL NIIFDGVLDS VLPGTEANKV 600 VNAIIGIEKC SIASNDAGII HKDVLNPQLK KEHSRGDLEA

Sequence ? help Back to Top

Protein Sequence Length: 640 aa Download sequence Send to blast

MMQILCECCN SDHRSSSTPM ATTTSSSASD PAAISPTPSQ QHASSTVKTL DDRRPAGTSS  60
SAGETEPKAA VEPQEYPRRP GVPDCSYYVE FGSCKFGMRC LYNHPAKHAG GCDKLEHPQR  120
PGEHDCLHYL RFGRCKYGMN CRFNHPPDRL PQQQVYFPWK ACHCHHSEGK SEAEHVKLNF  180
LGLPLRPGTG LCSYYMNRGI CKFGSNCKFH HPNSGSGHEK WDGSLQTNQI SSGVNIYSVL  240
DHGELNEQPV PSKDDFQRGN SCFQPAEQIR YTRDQLLKLR ETVDVPKDIM KLIQDINVEL  300
RAEDESRAPN ETNYVPTLSY KRFQETDSHD WHSRSLQTPV VAEEEKSQDD TREAKEPYAL  360
GWKQKEFNKQ DQKSFQSDSK AQAGPTLALH KAEDPWSIQR STVPEKYKVL KTVKGILNLL  420
TPEKFDILKD QLIEAGITRT DILKDVIDLI LEKAVAEPTL CPMYAQFCSY LNENITAFPP  480
KDTHCEQITF KQALSDKCQQ AFEIARNVRA DIYKLTGREQ EMERRDKERL VKHQILGKIR  540
LIRDLLKQKM VPDKIVHHIA QAVTDCENFH FEPLENVDLL NIIFDGVLDS VLPGTEANKV  600
VNAIIGIEKC SIASNDAGII HKDVLNPQLK KEHSRGDLEA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4iul_A	4e-15	409	565	22	182	Eukaryotic translation initiation factor 4 gamma 2
4iul_B	4e-15	409	565	22	182	Eukaryotic translation initiation factor 4 gamma 2
Search in ModeBase

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	AK119453	0.0	AK119453.1 Oryza sativa Japonica Group cDNA clone:001-133-D12, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015641846.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X1
Swissprot	Q5Z5Q3	0.0	C3H43_ORYSJ; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A0E0PYJ3	0.0	A0A0E0PYJ3_ORYRU; Uncharacterized protein
STRING	ORUFI06G17650.1	0.0	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14330	13	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18550.1	2e-29	C3H family protein

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]