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

Niben101Scf39208g00009.1

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: 712aa MW: 79329 Da PI: 6.3436

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf39208g00009.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.5	4.1e-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+ Niben101Scf39208g00009.1 115 ICPEVAKTGkvsSCPYSDKCRFSHD 139 5999********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	7.0E-4	115	141	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.962	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	6.8E-67	350	599	IPR013785	Aldolase-type TIM barrel
CDD	cd02801	2.91E-85	354	595	No hit	No description
SuperFamily	SSF51395	2.25E-58	354	673	No hit	No description
Pfam	PF01207	9.3E-48	357	630	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	438	456	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: 712 aa Download sequence Send to blast
MENETLMESS PAATATEQPE APVQQPSSNT DDGGLNQPLR TPEELVAKAM APVKREYLRP 60 PPSRPSNNNN NNSSTVGVEN DDAAEAKSAP ILKEKKSKRQ IKRERRQEQK SPLHICPEVA 120 KTGKVSSCPY SDKCRFSHDL EAFKAEKPAD VEGSCPFLVY EGPCPYGLAC RFAGTHEDDV 180 SAQTEKISRK SSELNFFNKD TQKLLWKNKM KFPKAEATVK LLALKRHPKD KILGDKEEYG 240 KVMLKEPATD TKTDSNEAAS DCSNKVEITP SISPEDDVVE NNLADDIRPL KKAKSSINEI 300 CSSQASNDSS VQGEVLDSNC DANKSDPTAD MVTDSDKSLK LHPREKKLID FRDKLYLAPL 360 TTVGNLPFRR VCKVLGADVT SGEMAMCTNL LQGQASEWAL LRRHSSENLF GVQICGAFPD 420 TVTKTVELIE QECSMDFIDI NMGCPIDIVV NKGAGSALLT KPMRMKSVVE AALVTVDIPV 480 TIKVRTAYFE GKNRIDSLIA DIGNWGATAV TIHGRSRQQR YSKLADWDYI YQCVQMAPKA 540 LQVLGNGDVF SYLDWNKHKT VSPELSTCMI ARGALIKHFL ILQPWIFTEI KEQRHWDITS 600 GEQLDILKDY ARFGLEHWGS DSKGVETTRH FLLEWLSYTC RYVPVGLLEI IPQRVNWRPP 660 SYDGRDDLET LMASDSAADW IRISEMLLGK VPAGFSFAPK HKSNAYDRAE NG

Sequence ? help Back to Top

Protein Sequence Length: 712 aa Download sequence Send to blast

MENETLMESS PAATATEQPE APVQQPSSNT DDGGLNQPLR TPEELVAKAM APVKREYLRP  60
PPSRPSNNNN NNSSTVGVEN DDAAEAKSAP ILKEKKSKRQ IKRERRQEQK SPLHICPEVA  120
KTGKVSSCPY SDKCRFSHDL EAFKAEKPAD VEGSCPFLVY EGPCPYGLAC RFAGTHEDDV  180
SAQTEKISRK SSELNFFNKD TQKLLWKNKM KFPKAEATVK LLALKRHPKD KILGDKEEYG  240
KVMLKEPATD TKTDSNEAAS DCSNKVEITP SISPEDDVVE NNLADDIRPL KKAKSSINEI  300
CSSQASNDSS VQGEVLDSNC DANKSDPTAD MVTDSDKSLK LHPREKKLID FRDKLYLAPL  360
TTVGNLPFRR VCKVLGADVT SGEMAMCTNL LQGQASEWAL LRRHSSENLF GVQICGAFPD  420
TVTKTVELIE QECSMDFIDI NMGCPIDIVV NKGAGSALLT KPMRMKSVVE AALVTVDIPV  480
TIKVRTAYFE GKNRIDSLIA DIGNWGATAV TIHGRSRQQR YSKLADWDYI YQCVQMAPKA  540
LQVLGNGDVF SYLDWNKHKT VSPELSTCMI ARGALIKHFL ILQPWIFTEI KEQRHWDITS  600
GEQLDILKDY ARFGLEHWGS DSKGVETTRH FLLEWLSYTC RYVPVGLLEI IPQRVNWRPP  660
SYDGRDDLET LMASDSAADW IRISEMLLGK VPAGFSFAPK HKSNAYDRAE NG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	3e-24	351	604	27	266	tRNA-dihydrouridine synthase B
6ei9_B	3e-24	351	604	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]