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

Niben101Scf10919g01035.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

C3H

Protein Properties

Length: 705aa MW: 78286.4 Da PI: 6.1064

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf10919g01035.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.5	4e-07	115	139	5	26
--SGGGGTS...--TTTTT-SS-SS CS zf-CCCH 5 lCrffartG...tCkyGdrCkFaHg 26 +C+ a+tG C+y d+C+F+H+ Niben101Scf10919g01035.1 115 ICPEVAKTGivsACPYSDKCRFSHD 139 5999********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	10.728	115	141	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.2E-4	115	139	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	8.305	154	179	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.20.20.70	4.2E-73	349	592	IPR013785	Aldolase-type TIM barrel
CDD	cd02801	3.11E-91	353	585	No hit	No description
SuperFamily	SSF51395	1.77E-63	353	666	No hit	No description
Pfam	PF01207	2.0E-52	356	623	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	437	455	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: 705 aa Download sequence Send to blast
MENETLTDSS PAATTTEHPE APVQQTSSNT DDGGVSQPFR TPEELVAKAI APVKREYLRP 60 PPSRPSNNND SNNSTVGVEN DDAAEAKSAP ILKEKKSKRQ IKRERRQEQK SPLHICPEVA 120 KTGIVSACPY SDKCRFSHDL EAFKAEKPAD IEGSCPFLVY EGPCPYGLAC RFAGTHEDDV 180 STQTEKISRK SSELNFFNKD TQKLLWKNKM KFPKAEATLK LLGLKGHPKD KILVDKEENG 240 EVVPKEPATD TKTDSNEAAS DCSNKVEITP SISPEDVVEN NLADDIRPLK KAKSSIDEIC 300 SSQASNGSSV QGEVLDSNCD VNKSDPTADM VTDSDKSLKL HPREKKLIDF RDKLYLAPLT 360 TVGNLPFRRV CKVLGADVTS GEMAMCTNLL QGQASEWALL RRHSSENLFG VQICGAYPDT 420 VTKTVELIEQ ECSVDFIDIN MGCPIDIVVN KGAGSALLTK PTRMKSVVEA ASATVDIPVT 480 IKVRTAYFEG KNRIDSLIAD IGNWGATAVT IHGRSRQQRY SKLADWDYIY QCVQRAPKSL 540 QVLGNGDVFS YLDWNKHKTD SPELSTCMIA RGALIKPWIF TEIKEQKHWD ITSGERLDIL 600 KDYARFGLEH WGSDSKGVET TRHFLLEWLS YTCRYVPVGL LEIIPQRINW RPPSYYGRDD 660 LETLMASDSA ADWIRISEML LGKVPAGFSF APKHKSNAYD RAENG

Sequence ? help Back to Top

Protein Sequence Length: 705 aa Download sequence Send to blast

MENETLTDSS PAATTTEHPE APVQQTSSNT DDGGVSQPFR TPEELVAKAI APVKREYLRP  60
PPSRPSNNND SNNSTVGVEN DDAAEAKSAP ILKEKKSKRQ IKRERRQEQK SPLHICPEVA  120
KTGIVSACPY SDKCRFSHDL EAFKAEKPAD IEGSCPFLVY EGPCPYGLAC RFAGTHEDDV  180
STQTEKISRK SSELNFFNKD TQKLLWKNKM KFPKAEATLK LLGLKGHPKD KILVDKEENG  240
EVVPKEPATD TKTDSNEAAS DCSNKVEITP SISPEDVVEN NLADDIRPLK KAKSSIDEIC  300
SSQASNGSSV QGEVLDSNCD VNKSDPTADM VTDSDKSLKL HPREKKLIDF RDKLYLAPLT  360
TVGNLPFRRV CKVLGADVTS GEMAMCTNLL QGQASEWALL RRHSSENLFG VQICGAYPDT  420
VTKTVELIEQ ECSVDFIDIN MGCPIDIVVN KGAGSALLTK PTRMKSVVEA ASATVDIPVT  480
IKVRTAYFEG KNRIDSLIAD IGNWGATAVT IHGRSRQQRY SKLADWDYIY QCVQRAPKSL  540
QVLGNGDVFS YLDWNKHKTD SPELSTCMIA RGALIKPWIF TEIKEQKHWD ITSGERLDIL  600
KDYARFGLEH WGSDSKGVET TRHFLLEWLS YTCRYVPVGL LEIIPQRINW RPPSYYGRDD  660
LETLMASDSA ADWIRISEML LGKVPAGFSF APKHKSNAYD RAENG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	2e-28	350	597	27	266	tRNA-dihydrouridine synthase B
6ei9_B	2e-28	350	597	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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009768328.1	0.0	PREDICTED: tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
Swissprot	Q9T0J6	0.0	DUS3L_ARATH; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBL	A0A1U7VPK1	0.0	A0A1U7VPK1_NICSY; 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]