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

Oropetium_20150105_23857A

Organism

Oropetium thomaeum

Taxonomic ID

1148796

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium

Family

C3H

Protein Properties

Length: 625aa MW: 69744.5 Da PI: 8.1764

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_23857A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.6	3.2e-06	94	106	14	26
--TTTTT-SS-SS CS zf-CCCH 14 tCkyGdrCkFaHg 26 CkyG++C+F+H+ Oropetium_20150105_23857A 94 SCKYGASCRFSHD 106 7***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	9.582	77	108	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	7.46	132	157	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.20.20.70	2.0E-75	268	511	IPR013785	Aldolase-type TIM barrel
SuperFamily	SSF51395	1.2E-66	272	585	No hit	No description
CDD	cd02801	1.64E-96	272	504	No hit	No description
Pfam	PF01207	2.7E-55	275	542	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	356	374	IPR018517	tRNA-dihydrouridine synthase, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008033	Biological Process	tRNA processing
GO:0055114	Biological Process	oxidation-reduction process
GO:0017150	Molecular Function	tRNA dihydrouridine synthase activity
GO:0046872	Molecular Function	metal ion binding
GO:0050660	Molecular Function	flavin adenine dinucleotide binding

Sequence ? help Back to Top
Protein Sequence Length: 625 aa Download sequence Send to blast
MATTALESSP AVAAAPSQMT PEELVARAVA PVKPAFLRPP PVREAPKEEG KAGGGGAVTA 60 EKKSKRQLKR ERQQEKKSTS HLCIEVGKSG NVDSCKYGAS CRFSHDIDAY LAQFVFDLIT 120 FHAQKPADLE GTCPFTASGT LCPYGLTCRY FSTHKDNLSP EKCPEGNREI NSLNKDTQKL 180 LWKNKYNFPK ATTQIKLLGL KFVEPRPLKK SKVEADENQN HGAGIHDNEA KSEDNKFSNG 240 VDLPSNNQSS CRIDLITTPH LREKKIIDFR EKLYLAPLTT VGNLPFRRLC KTLGADVTCG 300 EMAMCSNLLQ GQASEWALMR RHPSEDLFGV QICGPYPDTI ARTVELVDNE CSVDFIDINM 360 GCPIDIVVNK GAGSSLLTKP MRIKSIVQAA STVTEKPLTV KVRTAFFEGR NRADSIVSDI 420 YDWGASALTI HGRSRQQRYS KLADWDYIYQ CAQKAPDHLH VIGNGDVFSF TDWNRHLSDC 480 SKISTCMIAR GALIKPWIFT EIKEQKHWDI TSGERLNILK DFVRFGLEHW GSDSKGVETT 540 RHFLLEWLSY TCRYIPVGLL DVIPQRLNWR PPSYHGRDEL ETLMASDSAA DWIRISEMLL 600 GKVPEGFTFA PKHKSNAYDR AENG*

Sequence ? help Back to Top

Protein Sequence Length: 625 aa Download sequence Send to blast

MATTALESSP AVAAAPSQMT PEELVARAVA PVKPAFLRPP PVREAPKEEG KAGGGGAVTA  60
EKKSKRQLKR ERQQEKKSTS HLCIEVGKSG NVDSCKYGAS CRFSHDIDAY LAQFVFDLIT  120
FHAQKPADLE GTCPFTASGT LCPYGLTCRY FSTHKDNLSP EKCPEGNREI NSLNKDTQKL  180
LWKNKYNFPK ATTQIKLLGL KFVEPRPLKK SKVEADENQN HGAGIHDNEA KSEDNKFSNG  240
VDLPSNNQSS CRIDLITTPH LREKKIIDFR EKLYLAPLTT VGNLPFRRLC KTLGADVTCG  300
EMAMCSNLLQ GQASEWALMR RHPSEDLFGV QICGPYPDTI ARTVELVDNE CSVDFIDINM  360
GCPIDIVVNK GAGSSLLTKP MRIKSIVQAA STVTEKPLTV KVRTAFFEGR NRADSIVSDI  420
YDWGASALTI HGRSRQQRYS KLADWDYIYQ CAQKAPDHLH VIGNGDVFSF TDWNRHLSDC  480
SKISTCMIAR GALIKPWIFT EIKEQKHWDI TSGERLNILK DFVRFGLEHW GSDSKGVETT  540
RHFLLEWLSY TCRYIPVGLL DVIPQRLNWR PPSYHGRDEL ETLMASDSAA DWIRISEMLL  600
GKVPEGFTFA PKHKSNAYDR AENG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	4e-30	269	516	27	266	tRNA-dihydrouridine synthase B
6ei9_B	4e-30	269	516	27	266	tRNA-dihydrouridine synthase B
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Functional Description ? help Back to Top
Source	Description
UniProt	Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Oropetium_20150105_23857A

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	KM399264	0.0	KM399264.1 Sorghum bicolor FMN-linked oxidoreductases superfamily protein mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025824565.1	0.0	tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like isoform X2
Swissprot	Q9T0J6	0.0	DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBL	A0A3L6QB05	0.0	A0A3L6QB05_PANMI; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRING	Si009538m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP10322	25	27

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_23857A

Publications ? help Back to Top
Szponarski W,Sommerer N,Boyer JC,Rossignol M,Gibrat R Large-scale characterization of integral proteins from Arabidopsis vacuolar membrane by two-dimensional liquid chromatography. Proteomics, 2004. 4(2): p. 397-406 [PMID:14760709]