PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 694aa MW: 76720.1 Da PI: 7.2785

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI04G00850.4	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	19.2	2.2e-06	112	124	14	26
--TTTTT-SS-SS CS zf-CCCH 14 tCkyGdrCkFaHg 26 CkyGd+C+F+H+ OMERI04G00850.4 112 SCKYGDSCRFSHD 124 7***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	10.53	95	126	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.20.20.70	1.4E-74	338	581	IPR013785	Aldolase-type TIM barrel
SuperFamily	SSF51395	4.25E-65	342	653	No hit	No description
CDD	cd02801	2.29E-95	342	577	No hit	No description
Pfam	PF01207	8.5E-54	345	579	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	426	444	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:0003924	Molecular Function	GTPase activity
GO:0005525	Molecular Function	GTP binding
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: 694 aa Download sequence Send to blast
MPPHRAATMA ATAAAAAAAP PADLPDSSPT ASSPPRPSPE ELVARAVAPV KPAFLRPPPV 60 RDAPKDEGKA NGGGAVVAEK KSKRQLKRER KQEQKSSSHL CIEVGKSGNV SSCKYGDSCR 120 FSHDIDAYLA QKPADLEGMC PFTSLDQLCP YGLTCRFLGT HKYIHAASGN LSEKHEINAL 180 NKDIQKLLWK NKYKFPKASA QIKLLGLKEV IKSKPDAAND DKKVNHDNLD GNGDEKKEPL 240 CNPPVNAECD STLCEELDRS EGEPLIDNSI TCVEPRPTKK SKVESDEIDK HGAGTLNTKV 300 ESEDPNLSNG LEVPSNNASS CRTDLITTPH LREKKIIDFR EKLYLAPLTT VGNLPFRRLC 360 KTLGADITCG EMAMCTNLLQ GQASEWALLR RHSSEDFFGV QICGAYPDTV ARTVELVDNE 420 CSVDFIDINM GCPIDIVVNK GAGSSLLTKP MRIKSIVQAA STVTEKPLTV KVRTAFFEGR 480 NRADSIVSDI YDWGASAITV HGRSRQQRYS KLADWDYIYQ CAQKAPDQLH VVGNGDVFSF 540 TDWNKHVSGC SKISTCMIAR GALIKPWIFT EIKEQRHWDI TSGERFNILK DFVSFGLEHW 600 GSDSKGVETT RYFLLEWLSY TCRYIPVGLL DVIPQRLNWR PPSYCGRDDL ETLMISDSAA 660 DWIRISEMLL GKVPEGFTFT PKHKSNAYDR AENG

Sequence ? help Back to Top

Protein Sequence Length: 694 aa Download sequence Send to blast

MPPHRAATMA ATAAAAAAAP PADLPDSSPT ASSPPRPSPE ELVARAVAPV KPAFLRPPPV  60
RDAPKDEGKA NGGGAVVAEK KSKRQLKRER KQEQKSSSHL CIEVGKSGNV SSCKYGDSCR  120
FSHDIDAYLA QKPADLEGMC PFTSLDQLCP YGLTCRFLGT HKYIHAASGN LSEKHEINAL  180
NKDIQKLLWK NKYKFPKASA QIKLLGLKEV IKSKPDAAND DKKVNHDNLD GNGDEKKEPL  240
CNPPVNAECD STLCEELDRS EGEPLIDNSI TCVEPRPTKK SKVESDEIDK HGAGTLNTKV  300
ESEDPNLSNG LEVPSNNASS CRTDLITTPH LREKKIIDFR EKLYLAPLTT VGNLPFRRLC  360
KTLGADITCG EMAMCTNLLQ GQASEWALLR RHSSEDFFGV QICGAYPDTV ARTVELVDNE  420
CSVDFIDINM GCPIDIVVNK GAGSSLLTKP MRIKSIVQAA STVTEKPLTV KVRTAFFEGR  480
NRADSIVSDI YDWGASAITV HGRSRQQRYS KLADWDYIYQ CAQKAPDQLH VVGNGDVFSF  540
TDWNKHVSGC SKISTCMIAR GALIKPWIFT EIKEQRHWDI TSGERFNILK DFVSFGLEHW  600
GSDSKGVETT RYFLLEWLSY TCRYIPVGLL DVIPQRLNWR PPSYCGRDDL ETLMISDSAA  660
DWIRISEMLL GKVPEGFTFT PKHKSNAYDR AENG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	1e-27	339	573	27	257	tRNA-dihydrouridine synthase B
6ei9_B	1e-27	339	573	27	257	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}.

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	AK111699	0.0	AK111699.1 Oryza sativa Japonica Group cDNA clone:J023009K15, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015635918.1	0.0	LOW QUALITY PROTEIN: tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
Swissprot	Q7XT07	0.0	DUS3L_ORYSJ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBL	A0A0E0DA55	0.0	A0A0E0DA55_9ORYZ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRING	OMERI04G00750.1	0.0	(Oryza meridionalis)

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]