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

Pahal.E02992.1

Organism

Panicum hallii

Taxonomic ID

206008

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

C3H

Protein Properties

Length: 684aa MW: 75687.7 Da PI: 6.9025

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.E02992.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.2	9.2e-06	103	115	14	26
--TTTTT-SS-SS CS zf-CCCH 14 tCkyGdrCkFaHg 26 CkyG +C+F+H+ Pahal.E02992.1 103 SCKYGTSCRFSHD 115 7***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	9.244	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	2.5E-75	327	570	IPR013785	Aldolase-type TIM barrel
SuperFamily	SSF51395	8.9E-67	331	644	No hit	No description
CDD	cd02801	3.68E-96	331	566	No hit	No description
Pfam	PF01207	7.2E-55	334	591	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	415	433	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: 684 aa Download sequence Send to blast
MTATAPATDP SDSSPAVTTD SPPPPRPTAE ELVARAVAPV KPAFLRPPPI REVPKEEGKA 60 GGGGAVVTGE KKSKRQLKRE RQQEQKSTSH LCIEVGKSGN VDSCKYGTSC RFSHDINAYL 120 AQKPGDLEGT CPFTALGHLC PYGLTCRFLG THKDNLAPQN HSEGNHERNP LSKDIQKLLW 180 KNKYKFPKAS AQIKLLGLKD GNKNKAKAAN DDNPHEAHEL NGDEKTESLS SIPANVEPDP 240 TLCKETDNSE GEPLVVSSVQ CVEPRPLKKS KVEVDETLND GTGIHDNEAE SEDLNLINGI 300 KVSSNNQSSC RVDLITTPHL REKKIIDFRE KLYLAPLTTV GNLPFRRLCK TLGADITCGE 360 MAMCTNLLQG QASEWALLRR HPSEDLFGVQ ICGPYPDTVA RTVELVDNEC SVDFIDINMG 420 CPIDIVVNKG AGSSLLTKPM RIKSIVQAAS TVTEKPLTVK VRTAFFEGRN RADSIVSDIY 480 DWGASAITIH GRSRQQRYSK LADWDYIYQC AQKAPDNLHV IGNGDVFSFT DWNKHVSDCS 540 KISTCMIARG ALIKPWLFTE IKEQRHWDIT SGERLNILKD FVHFGLEHWG SDSKGVETTR 600 HFLLEWLSYT CRYIPVGLLD VIPQRLNWRP PSYYGRDDLE TLMASDSAAD WIRISEMLLG 660 KVPEGFTFAP KHKSNAYDRA ENG*

Sequence ? help Back to Top

Protein Sequence Length: 684 aa Download sequence Send to blast

MTATAPATDP SDSSPAVTTD SPPPPRPTAE ELVARAVAPV KPAFLRPPPI REVPKEEGKA  60
GGGGAVVTGE KKSKRQLKRE RQQEQKSTSH LCIEVGKSGN VDSCKYGTSC RFSHDINAYL  120
AQKPGDLEGT CPFTALGHLC PYGLTCRFLG THKDNLAPQN HSEGNHERNP LSKDIQKLLW  180
KNKYKFPKAS AQIKLLGLKD GNKNKAKAAN DDNPHEAHEL NGDEKTESLS SIPANVEPDP  240
TLCKETDNSE GEPLVVSSVQ CVEPRPLKKS KVEVDETLND GTGIHDNEAE SEDLNLINGI  300
KVSSNNQSSC RVDLITTPHL REKKIIDFRE KLYLAPLTTV GNLPFRRLCK TLGADITCGE  360
MAMCTNLLQG QASEWALLRR HPSEDLFGVQ ICGPYPDTVA RTVELVDNEC SVDFIDINMG  420
CPIDIVVNKG AGSSLLTKPM RIKSIVQAAS TVTEKPLTVK VRTAFFEGRN RADSIVSDIY  480
DWGASAITIH GRSRQQRYSK LADWDYIYQC AQKAPDNLHV IGNGDVFSFT DWNKHVSDCS  540
KISTCMIARG ALIKPWLFTE IKEQRHWDIT SGERLNILKD FVHFGLEHWG SDSKGVETTR  600
HFLLEWLSYT CRYIPVGLLD VIPQRLNWRP PSYYGRDDLE TLMASDSAAD WIRISEMLLG  660
KVPEGFTFAP KHKSNAYDRA ENG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	8e-29	328	575	27	266	tRNA-dihydrouridine synthase B
6ei9_B	8e-29	328	575	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 -- 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	XP_025824565.1	0.0	tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like isoform X2
Swissprot	Q7XT07	0.0	DUS3L_ORYSJ; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]-like
TrEMBL	A0A2S3I578	0.0	A0A2S3I578_9POAL; tRNA-dihydrouridine(47) synthase [NAD(P)(+)]
STRING	Si009538m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP10322	25	27

Link Out ? help Back to Top
Phytozome	Pahal.E02992.1

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]