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

Gorai.001G001500.1

Common Name

B456_001G001500, LOC105793233

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 393aa MW: 44502.2 Da PI: 5.7819

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.001G001500.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	13.2	0.00027	68	92	1	23
EEETTTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt..H 23 y+C+ C+k ++++ + +H+++ H Gorai.001G001500.1 68 YSCGLCDKGYRSSKAYSQHLKSraH 92 99******************98666 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	0.073	1	35	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	1.0E-5	3	36	No hit	No description
SMART	SM00355	33	4	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00451	0.92	65	99	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	2.09E-6	67	104	No hit	No description
SMART	SM00355	0.45	68	92	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.265	68	97	IPR007087	Zinc finger, C2H2
Pfam	PF12171	5.2E-6	68	92	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	70	92	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	3.95E-8	152	200	No hit	No description
Pfam	PF12756	2.6E-25	167	268	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	25	216	243	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: 393 aa Download sequence Send to blast
MPGLTCNACN REFLDEAERK LHYKSDWHRY NLKRKVAGVP GVTEALFLAR QAALAEEKDK 60 QNETPMLYSC GLCDKGYRSS KAYSQHLKSR AHIAQASQHP EEEKAAIIKP FIRRAVNKPP 120 QPRDTNDEES DDDWVEVDPD EDLASGDEMD IDNGEETGQE ELDPCCCFMC DLKHDTIESC 180 VVHMHKFHGF FIPDVEYLKN PEGLLIYLGL KVKRDFICLY CNERCHPFTS LEAVRKHMAA 240 KGHCKVHYGD GDEDEEAELE EFYDYSSSYV DDWGKQLVAV GDKDSTVELG GGSELIITRK 300 SDEGIMSKTL GSREYSRYYR QSPRPSPANN MAITAALASR YRSMGLATVQ SKEQIVRMKV 360 MKAMNRSGVE TMRTKVGMKN NVIQNLPKNV PY*

Sequence ? help Back to Top

Protein Sequence Length: 393 aa Download sequence Send to blast

MPGLTCNACN REFLDEAERK LHYKSDWHRY NLKRKVAGVP GVTEALFLAR QAALAEEKDK  60
QNETPMLYSC GLCDKGYRSS KAYSQHLKSR AHIAQASQHP EEEKAAIIKP FIRRAVNKPP  120
QPRDTNDEES DDDWVEVDPD EDLASGDEMD IDNGEETGQE ELDPCCCFMC DLKHDTIESC  180
VVHMHKFHGF FIPDVEYLKN PEGLLIYLGL KVKRDFICLY CNERCHPFTS LEAVRKHMAA  240
KGHCKVHYGD GDEDEEAELE EFYDYSSSYV DDWGKQLVAV GDKDSTVELG GGSELIITRK  300
SDEGIMSKTL GSREYSRYYR QSPRPSPANN MAITAALASR YRSMGLATVQ SKEQIVRMKV  360
MKAMNRSGVE TMRTKVGMKN NVIQNLPKNV PY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6qik_z	5e-22	4	371	6	411	Cytoplasmic 60S subunit biogenesis factor REH1
6qt0_z	5e-22	4	371	6	411	Cytoplasmic 60S subunit biogenesis factor REH1
6qtz_z	5e-22	4	371	6	411	Cytoplasmic 60S subunit biogenesis factor REH1
6ri5_z	5e-22	4	371	6	411	Cytoplasmic 60S subunit biogenesis factor REH1
6s05_z	5e-22	4	371	6	411	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_012477804.1	0.0	PREDICTED: zinc finger protein 622-like
Swissprot	Q8H1G5	0.0	REIL1_ARATH; Cytoplasmic 60S subunit biogenesis factor REI1 homolog 1
TrEMBL	A0A0D2PRK6	0.0	A0A0D2PRK6_GOSRA; Uncharacterized protein
STRING	Gorai.001G001500.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3429	5	11

Link Out ? help Back to Top
Phytozome	Gorai.001G001500.1
Entrez Gene	105793233

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]