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

Itr_sc000274.1_g00010.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

C2H2

Protein Properties

Length: 463aa MW: 53217.1 Da PI: 6.3632

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000274.1_g00010.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.9	3.8e-05	123	147	1	23
EEETTTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt..H 23 y+C+ Cgk ++++ + +H+++ H Itr_sc000274.1_g00010.1 123 YTCGVCGKEYRSSQAYSQHLKSksH 147 9*******************98666 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	0.0011	1	35	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	1.76E-5	3	35	No hit	No description
SMART	SM00355	45	4	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00451	7	120	154	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	1.31E-5	122	153	No hit	No description
SMART	SM00355	0.031	123	147	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.556	123	152	IPR007087	Zinc finger, C2H2
Pfam	PF12171	1.3E-5	123	147	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	125	147	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.73E-9	216	268	No hit	No description
SMART	SM00355	280	230	253	IPR015880	Zinc finger, C2H2-like
Pfam	PF12756	1.3E-24	232	333	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	34	281	308	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 463 aa Download sequence Send to blast
MPGLTCNACN KEFIDDAEQK LHYKSEWHRY NLKRKDELVK WQGTSCRCIC RLRCTQADND 60 QKFLYYSIKH IKFTVCSSYF YSRQCVQCKL VAGVPGVTEA LFLARQSVLA EENKKLTETP 120 MLYTCGVCGK EYRSSQAYSQ HLKSKSHLLK ASQEPNHNGE NRAIIRPLQR PILDRSTQQV 180 EEDVDESEES EWEEVDEEDM AEATDSLMHT SNENMQDADM DDYSVEVDPS CCFMCDLKHR 240 TIESCMVHMH KQHGFFIPDV EYLKDPKGFL TYVGLKVKRD YLCLYCNDRC HPFSSLEGVR 300 KHMEAKSHCK VHYGDGGDDE EAELEEFYDY SSSYVDANGK ELVASGDTSS GVELGSGGAE 360 LIIKKRTDDG VSTITLGSRE FLRYYRQKLR PTRTNDIALS AALASRYRSM GLATVQSREN 420 MVKMKVMKAM NRSGHEAMRT KIECFQRLEP DLRLHSSWET CRL

Sequence ? help Back to Top

Protein Sequence Length: 463 aa Download sequence Send to blast

MPGLTCNACN KEFIDDAEQK LHYKSEWHRY NLKRKDELVK WQGTSCRCIC RLRCTQADND  60
QKFLYYSIKH IKFTVCSSYF YSRQCVQCKL VAGVPGVTEA LFLARQSVLA EENKKLTETP  120
MLYTCGVCGK EYRSSQAYSQ HLKSKSHLLK ASQEPNHNGE NRAIIRPLQR PILDRSTQQV  180
EEDVDESEES EWEEVDEEDM AEATDSLMHT SNENMQDADM DDYSVEVDPS CCFMCDLKHR  240
TIESCMVHMH KQHGFFIPDV EYLKDPKGFL TYVGLKVKRD YLCLYCNDRC HPFSSLEGVR  300
KHMEAKSHCK VHYGDGGDDE EAELEEFYDY SSSYVDANGK ELVASGDTSS GVELGSGGAE  360
LIIKKRTDDG VSTITLGSRE FLRYYRQKLR PTRTNDIALS AALASRYRSM GLATVQSREN  420
MVKMKVMKAM NRSGHEAMRT KIECFQRLEP DLRLHSSWET CRL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6rzz_u	5e-22	225	391	157	328	Cytoplasmic 60S subunit biogenesis factor REI1
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Functional Description ? help Back to Top
Source	Description
UniProt	Pre-60S-associated factor involved in the cytoplasmic maturation of the 60S subunit. Involved in the dissociation and recycling of other late pre-60S factors before newly synthesized large ribosomal subunits enter translation (By similarity). Can complement the growth defect of a yeast mutant lacking REI1 (PubMed:24038679). Required for leaf growth under cold temperature conditions (PubMed:24038679). {ECO:0000250\|UniProtKB:P38344, ECO:0000269\|PubMed:24038679}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cold. {ECO:0000269\|PubMed:24038679}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019176624.1	0.0	PREDICTED: cytoplasmic 60S subunit biogenesis factor REI1 homolog 1
Swissprot	Q9ZQ18	1e-145	REIL2_ARATH; Cytoplasmic 60S subunit biogenesis factor REI1 homolog 2
TrEMBL	A0A484KSQ2	0.0	A0A484KSQ2_9ASTE; Uncharacterized protein
STRING	XP_009769243.1	0.0	(Nicotiana sylvestris)

Publications ? help Back to Top
Schmidt S,Dethloff F,Beine-Golovchuk O,Kopka J The REIL1 and REIL2 proteins of Arabidopsis thaliana are required for leaf growth in the cold. Plant Physiol., 2013. 163(4): p. 1623-39 [PMID:24038679] Beine-Golovchuk O, et al. Plant Temperature Acclimation and Growth Rely on Cytosolic Ribosome Biogenesis Factor Homologs. Plant Physiol., 2018. 176(3): p. 2251-2276 [PMID:29382692] Huang KC,Lin WC,Cheng WH Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis. BMC Plant Biol., 2018. 18(1): p. 40 [PMID:29490615]