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

GRMZM2G120740_P03

Common Name

pco088744, ZEAMMB73_676116

Organism

Zea mays

Taxonomic ID

4577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea

Family

C3H

Protein Properties

Length: 686aa MW: 76014.3 Da PI: 6.9135

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GRMZM2G120740_P03	genome	MaizeSequence	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.4	8.1e-06	103	115	14	26
--TTTTT-SS-SS CS zf-CCCH 14 tCkyGdrCkFaHg 26 CkyG +C+F+H+ GRMZM2G120740_P03 103 SCKYGTSCHFSHD 115 7***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	8.69	86	117	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	7.235	130	155	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.20.20.70	2.1E-74	330	573	IPR013785	Aldolase-type TIM barrel
SuperFamily	SSF51395	1.2E-65	334	646	No hit	No description
CDD	cd02801	7.72E-95	334	569	No hit	No description
Pfam	PF01207	9.3E-54	337	572	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	418	436	IPR018517	tRNA-dihydrouridine synthase, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0002943	Biological Process	tRNA dihydrouridine synthesis
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: 686 aa Download sequence Send to blast
MAATTPATDP PDALLAVTAD APTPARPTPA ELVARAVAPV KPAFLCPPPV REAPKEEGKA 60 AGGGAVVKVE KKSKRQLKRE RQQEQKSTSH LCIEVGKSGN VDSCKYGTSC HFSHDINAYL 120 SQKPADLEGT CPFTALGHLC PYGLTCRFLS THKDNLAPQN HPEGNCERNP LSKEIQKLLW 180 KSKYKFPKAS AQIKLLGLKD GNKNKAEAVN DDNPDETCNL NGDDKTLLSS IPENVEPDPT 240 LCKEIDNSGG EPLVVDSVES VEPRASKKSK VEVDETRDNE IKGPTTGIHD NEAESEVNSI 300 SGVKVSSNNQ SSCKVDLITI PHLREKKIID FREKLYLAPL TTVGNLPFRR LCKTLGADVT 360 CGEMAMCTNL LQGQASEWAL LRRHPSEDLF GVQICGPYPD TVARTVELVD NECSVDFIDI 420 NMGCPIDIVV NKGAGSSLLT KPMRIRSIVQ AASTVTEKPL TVKVRTAFFE GRNRADSLVS 480 DIYNWGASAI TIHGRSRQQR YSKLADWDYI YQCAQKAPDY LHVIGNGDVF SFTDWNKHVS 540 DCSKISTCMI ARGALIKPWL FTEIKEQRHW DITSGERLNI LKDFVRFGLE HWGSDFKGVE 600 TTRHFLLEWL SYTCRYIPVG LLDVIPQRLN WRPPSYYGRD DLETLMVSDS AADWIRISEM 660 LLGKVPEGFT FAPKHKSNAY DRAENG

Sequence ? help Back to Top

Protein Sequence Length: 686 aa Download sequence Send to blast

MAATTPATDP PDALLAVTAD APTPARPTPA ELVARAVAPV KPAFLCPPPV REAPKEEGKA  60
AGGGAVVKVE KKSKRQLKRE RQQEQKSTSH LCIEVGKSGN VDSCKYGTSC HFSHDINAYL  120
SQKPADLEGT CPFTALGHLC PYGLTCRFLS THKDNLAPQN HPEGNCERNP LSKEIQKLLW  180
KSKYKFPKAS AQIKLLGLKD GNKNKAEAVN DDNPDETCNL NGDDKTLLSS IPENVEPDPT  240
LCKEIDNSGG EPLVVDSVES VEPRASKKSK VEVDETRDNE IKGPTTGIHD NEAESEVNSI  300
SGVKVSSNNQ SSCKVDLITI PHLREKKIID FREKLYLAPL TTVGNLPFRR LCKTLGADVT  360
CGEMAMCTNL LQGQASEWAL LRRHPSEDLF GVQICGPYPD TVARTVELVD NECSVDFIDI  420
NMGCPIDIVV NKGAGSSLLT KPMRIRSIVQ AASTVTEKPL TVKVRTAFFE GRNRADSLVS  480
DIYNWGASAI TIHGRSRQQR YSKLADWDYI YQCAQKAPDY LHVIGNGDVF SFTDWNKHVS  540
DCSKISTCMI ARGALIKPWL FTEIKEQRHW DITSGERLNI LKDFVRFGLE HWGSDFKGVE  600
TTRHFLLEWL SYTCRYIPVG LLDVIPQRLN WRPPSYYGRD DLETLMVSDS AADWIRISEM  660
LLGKVPEGFT FAPKHKSNAY DRAENG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	4e-27	331	578	27	266	tRNA-dihydrouridine synthase B
6ei9_B	4e-27	331	578	27	266	tRNA-dihydrouridine synthase B
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Zm.66892	0.0	cell culture\| meristem\| shoot\| tassel

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	GRMZM2G120740

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	GRMZM2G120740_P03

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	BT067884	0.0	BT067884.1 Zea mays full-length cDNA clone ZM_BFc0185C01 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001145737.1	0.0	uncharacterized LOC100279244
Swissprot	Q7XT07	0.0	DUS3L_ORYSJ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBL	B7ZX41	0.0	B7ZX41_MAIZE; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRING	GRMZM2G120740_P03	0.0	(Zea mays)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP10322	25	27
Representative plant	OGRP5751	12	13

Link Out ? help Back to Top
Phytozome	GRMZM2G120740_P03
Entrez Gene	100279244

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]