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

Itr_sc002579.1_g00009.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

C3H

Protein Properties

Length: 730aa MW: 80820.3 Da PI: 6.7518

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc002579.1_g00009.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	20.7	7.3e-07	113	137	5	26
--SGGGGTS...--TTTTT-SS-SS CS zf-CCCH 5 lCrffartG...tCkyGdrCkFaHg 26 lC+ a+tG C+y d+C+F+H+ Itr_sc002579.1_g00009.1 113 LCPVVAKTGkvsACSYSDKCRFNHD 137 8***********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	9.272	108	139	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	7.873	152	177	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.20.20.70	4.8E-73	374	617	IPR013785	Aldolase-type TIM barrel
CDD	cd02801	1.01E-89	378	613	No hit	No description
SuperFamily	SSF51395	6.72E-63	378	691	No hit	No description
Pfam	PF01207	2.8E-50	381	648	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	462	480	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: 730 aa Download sequence Send to blast
MDGPTSTEPI VEEDPCISEH PPPAKIVGGG GVETQTVHNK TPEELVAKAI APVKREYLRP 60 PPQRHHSDGN RAVTGVQNDD AAEAKSNSLL KEKKSKRQLK RERLQEQKSP LNLCPVVAKT 120 GKVSACSYSD KCRFNHDVDA FNAQKPADIE GTCPFLDNEG PCPYGLACRF AGTHKDDLPV 180 ETLNSRRQCS ELNVLSKETQ KLLWKNKLKF TKAHATLKHL GITRHGINDK FSNQEEDDQI 240 DTNGSSTTDN NEAPADANIK LESSLLVTGE EGLDDAAVIE DDRPQKKAKS SINETPTFID 300 VNNASNIQEK DLQKSHDGDA SVGTAVMLSA ATNIQETNLQ RSQDRVTSAA TVDHPAAETD 360 KSLKVHPREK KLIDFKEKLY LAPLTTVGNL PFRRVCKVLG ADVTCGEMAM CTNLLQGQAS 420 EWALLRRHSS EEFFGVQICG SYPDTVARTV ELIEQECSVD FIDINMGCPI DIVVSKGGGS 480 SLLTKPMRMK SVIAGATATV DTPITIKVRT GYFEGKNRIH SLIADIRNCG ATAVTIHGRS 540 RQQRYSKLAD WGYIYQCAKT APKSLQVLGN GDVFSYVDWN KHKTDCPELS TCMIARGALI 600 KPWIFTEIKE QRHWDISSGE RLDILKDYVR FGLQHWGSDS KGVETTRHFL LEWLSYTCRY 660 IPVGLLDVIP QRINWRSPAY FGRDDLETLM ASDSAADWIR ISELLLGKVP EGFSFAPKHK 720 SNAYDTAENG

Sequence ? help Back to Top

Protein Sequence Length: 730 aa Download sequence Send to blast

MDGPTSTEPI VEEDPCISEH PPPAKIVGGG GVETQTVHNK TPEELVAKAI APVKREYLRP  60
PPQRHHSDGN RAVTGVQNDD AAEAKSNSLL KEKKSKRQLK RERLQEQKSP LNLCPVVAKT  120
GKVSACSYSD KCRFNHDVDA FNAQKPADIE GTCPFLDNEG PCPYGLACRF AGTHKDDLPV  180
ETLNSRRQCS ELNVLSKETQ KLLWKNKLKF TKAHATLKHL GITRHGINDK FSNQEEDDQI  240
DTNGSSTTDN NEAPADANIK LESSLLVTGE EGLDDAAVIE DDRPQKKAKS SINETPTFID  300
VNNASNIQEK DLQKSHDGDA SVGTAVMLSA ATNIQETNLQ RSQDRVTSAA TVDHPAAETD  360
KSLKVHPREK KLIDFKEKLY LAPLTTVGNL PFRRVCKVLG ADVTCGEMAM CTNLLQGQAS  420
EWALLRRHSS EEFFGVQICG SYPDTVARTV ELIEQECSVD FIDINMGCPI DIVVSKGGGS  480
SLLTKPMRMK SVIAGATATV DTPITIKVRT GYFEGKNRIH SLIADIRNCG ATAVTIHGRS  540
RQQRYSKLAD WGYIYQCAKT APKSLQVLGN GDVFSYVDWN KHKTDCPELS TCMIARGALI  600
KPWIFTEIKE QRHWDISSGE RLDILKDYVR FGLQHWGSDS KGVETTRHFL LEWLSYTCRY  660
IPVGLLDVIP QRINWRSPAY FGRDDLETLM ASDSAADWIR ISELLLGKVP EGFSFAPKHK  720
SNAYDTAENG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	3e-27	375	622	27	266	tRNA-dihydrouridine synthase B
6ei9_B	3e-27	375	622	27	266	tRNA-dihydrouridine synthase B
Search in ModeBase

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019157505.1	0.0	PREDICTED: tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
Swissprot	Q9T0J6	0.0	DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBL	A0A484LCU8	0.0	A0A484LCU8_9ASTE; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRING	XP_009768328.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA8039	19	23

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]