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

cra_locus_9769_iso_4

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

C3H

Protein Properties

Length: 813aa MW: 90344 Da PI: 6.7548

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_9769_iso_4	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.1	5.5e-07	123	147	5	26
--SGGGGTS...--TTTTT-SS-SS CS zf-CCCH 5 lCrffartG...tCkyGdrCkFaHg 26 lC+ a++G C yGd+C+F+H+ cra_locus_9769_iso_4_len_2895_ver_3 123 LCPEVAKSGkvsSCAYGDKCRFSHD 147 7999********************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	9.1E-4	123	149	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.7E-4	123	147	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.516	123	149	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	7.526	162	188	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.20.20.70	2.3E-67	423	650	IPR013785	Aldolase-type TIM barrel
SuperFamily	SSF51395	1.47E-57	427	657	No hit	No description
CDD	cd02801	1.10E-85	427	650	No hit	No description
Pfam	PF01207	3.3E-48	430	648	IPR001269	tRNA-dihydrouridine synthase
PROSITE pattern	PS01136	0	511	529	IPR018517	tRNA-dihydrouridine synthase, conserved site
SuperFamily	SSF51395	1.47E-57	686	774	No hit	No description

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: 813 aa Download sequence Send to blast
XTETLTGQRG LNRPKMDGVS AQPAVIADDS RISEDTRNSE LDVDGSAAAP VPAQVTPEEL 60 VAKAIAPVKR EFLRPPPVRA SSATNTQNDD VAEAKSASLV KEKKSKRQLK RERRQDLKSA 120 LHLCPEVAKS GKVSSCAYGD KCRFSHDIEA FKAQKPVDLE GKCPFLEVNE GPCPYGLACR 180 FAGTHKNDDD AAVSGGTVRI RRNSSEVNSL NKDVQKLLWK NKMKFTKAEK TLKLLGLVVS 240 KKNNFLLLYY EVFLVKCLFC IVCYGQLLXI CKFGCLSELG FYMISMTVEC PNEWPGEKKN 300 FEDKDNDDQP VANGSDVDRD NGNAEAIVVG SSNEVECCSQ ELADDKPDDT DVFDESRPIK 360 KAKSSNDEAF GSGEIINGTA ILEKDIGKNS EQDESCLVTN TDSAATETDK SLKLQPREKK 420 IIDFREKLYL APLTTVGNLP FRRVCKALGA DITCGEMAMC TNLLQGQASE WALLRRHSSE 480 DIFGVQICGA YPDTVAKTVE LIEQECSVDF IDINMGCPID IVVNKGAGSA LLTKPMRMKS 540 VIQAASGTVE TPITVKVRTA YFEGRNRIDS LIADIENWGA TAVTIHGRSR QQRYSKLADW 600 DYIYECVKRA PDSLPVLGNG DVYSFLDWNK HKNDCPKLAS CMIARGALIK VXTKHLVSCR 660 NVGILVHVYN KIFFSKHSRF LNFAAMDFYR NKGTEALDIS SGERLNIFKE YANFGLQHWG 720 SDSKGVETTR HFLLEWLSYT CRYIPVGLLE VIPQRINWRP PSYYGRDDLE TMMASDSAAD 780 WIRISEMLLG KVPDGFTFAP KHKSNAYDRA ENG

Sequence ? help Back to Top

Protein Sequence Length: 813 aa Download sequence Send to blast

XTETLTGQRG LNRPKMDGVS AQPAVIADDS RISEDTRNSE LDVDGSAAAP VPAQVTPEEL  60
VAKAIAPVKR EFLRPPPVRA SSATNTQNDD VAEAKSASLV KEKKSKRQLK RERRQDLKSA  120
LHLCPEVAKS GKVSSCAYGD KCRFSHDIEA FKAQKPVDLE GKCPFLEVNE GPCPYGLACR  180
FAGTHKNDDD AAVSGGTVRI RRNSSEVNSL NKDVQKLLWK NKMKFTKAEK TLKLLGLVVS  240
KKNNFLLLYY EVFLVKCLFC IVCYGQLLXI CKFGCLSELG FYMISMTVEC PNEWPGEKKN  300
FEDKDNDDQP VANGSDVDRD NGNAEAIVVG SSNEVECCSQ ELADDKPDDT DVFDESRPIK  360
KAKSSNDEAF GSGEIINGTA ILEKDIGKNS EQDESCLVTN TDSAATETDK SLKLQPREKK  420
IIDFREKLYL APLTTVGNLP FRRVCKALGA DITCGEMAMC TNLLQGQASE WALLRRHSSE  480
DIFGVQICGA YPDTVAKTVE LIEQECSVDF IDINMGCPID IVVNKGAGSA LLTKPMRMKS  540
VIQAASGTVE TPITVKVRTA YFEGRNRIDS LIADIENWGA TAVTIHGRSR QQRYSKLADW  600
DYIYECVKRA PDSLPVLGNG DVYSFLDWNK HKNDCPKLAS CMIARGALIK VXTKHLVSCR  660
NVGILVHVYN KIFFSKHSRF LNFAAMDFYR NKGTEALDIS SGERLNIFKE YANFGLQHWG  720
SDSKGVETTR HFLLEWLSYT CRYIPVGLLE VIPQRINWRP PSYYGRDDLE TMMASDSAAD  780
WIRISEMLLG KVPDGFTFAP KHKSNAYDRA ENG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ei9_A	6e-25	424	622	27	222	tRNA-dihydrouridine synthase B
6ei9_B	6e-25	424	622	27	222	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_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]