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

Spipo28G0019400

Organism

Spirodela polyrhiza

Taxonomic ID

29656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela

Family

C2H2

Protein Properties

Length: 413aa MW: 46692.6 Da PI: 6.4423

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Spipo28G0019400	genome	MIPS/IBIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.5	4.9e-05	69	93	1	23
EEETTTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt..H 23 y+C Cgk ++++ L +H+++ H Spipo28G0019400 69 YSCVLCGKEYRSSKALDQHLKSkaH 93 99******************98666 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	0.0031	2	36	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	5.27E-6	3	37	No hit	No description
SMART	SM00355	24	5	29	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	5.2E-5	6	30	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	7	29	IPR007087	Zinc finger, C2H2
SMART	SM00451	8.4	66	100	IPR003604	Zinc finger, U1-type
Gene3D	G3DSA:3.30.160.60	2.6E-5	68	96	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.1	69	93	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.221	69	98	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	6.1E-7	69	99	No hit	No description
Pfam	PF12171	1.0E-7	69	93	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	71	93	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.19E-7	172	222	No hit	No description
SMART	SM00355	42	184	207	IPR015880	Zinc finger, C2H2-like
Pfam	PF12756	2.1E-26	186	287	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	15	235	262	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: 413 aa Download sequence Send to blast
MPGVLTCNAC NKGFEDEAEQ KLHYKSEWHR YNLKRKIAGL PGVTEALFQA RQLALAEEKN 60 RSNVTPMSYS CVLCGKEYRS SKALDQHLKS KAHIMKASQG PMPVSAMTTI KPLTTRSSSG 120 HSSTGKPTLE RRVELDESEG SEDEWVEVDS ADDVNESSES LMNLDVDQDV ADEDKGMDVD 180 LDTSRCFICD MKHETVESCT VHMHRQHGFF IPDIEYLKDA NGFLTFLGLK VMRDFKCLYC 240 NDRCRPFQSL EAVRKHMIAK GHCRVRYGDG DDDEEAELEE FYDYTSSYEG MDGNQLVVAD 300 DANQNVELGY GGSELIITRR SENGVSVKTF GSREFLRYYR QKPRPSLSRD VALAISLASR 360 YKSMGLATVQ SREQTLRRKI QREMSRSGVE AMRSKMGMKS NVIRNLPKNV PY*

Sequence ? help Back to Top

Protein Sequence Length: 413 aa Download sequence Send to blast

MPGVLTCNAC NKGFEDEAEQ KLHYKSEWHR YNLKRKIAGL PGVTEALFQA RQLALAEEKN  60
RSNVTPMSYS CVLCGKEYRS SKALDQHLKS KAHIMKASQG PMPVSAMTTI KPLTTRSSSG  120
HSSTGKPTLE RRVELDESEG SEDEWVEVDS ADDVNESSES LMNLDVDQDV ADEDKGMDVD  180
LDTSRCFICD MKHETVESCT VHMHRQHGFF IPDIEYLKDA NGFLTFLGLK VMRDFKCLYC  240
NDRCRPFQSL EAVRKHMIAK GHCRVRYGDG DDDEEAELEE FYDYTSSYEG MDGNQLVVAD  300
DANQNVELGY GGSELIITRR SENGVSVKTF GSREFLRYYR QKPRPSLSRD VALAISLASR  360
YKSMGLATVQ SREQTLRRKI QREMSRSGVE AMRSKMGMKS NVIRNLPKNV PY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6qik_z	1e-25	5	391	6	424	Cytoplasmic 60S subunit biogenesis factor REH1
6qt0_z	1e-25	5	391	6	424	Cytoplasmic 60S subunit biogenesis factor REH1
6qtz_z	1e-25	5	391	6	424	Cytoplasmic 60S subunit biogenesis factor REH1
6ri5_z	1e-25	5	391	6	424	Cytoplasmic 60S subunit biogenesis factor REH1
6s05_z	1e-25	5	391	6	424	Cytoplasmic 60S subunit biogenesis factor REH1
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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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020101839.1	0.0	cytoplasmic 60S subunit biogenesis factor REI1 homolog 1-like
Swissprot	Q8H1G5	1e-159	REIL1_ARATH; Cytoplasmic 60S subunit biogenesis factor REI1 homolog 1
TrEMBL	A0A1D1YCW8	0.0	A0A1D1YCW8_9ARAE; Zinc finger protein C550.15c
STRING	GSMUA_Achr6P30420_001	0.0	(Musa acuminata)

Link Out ? help Back to Top
Phytozome	Spipo28G0019400

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]