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

orange1.1g015261m

Common Name

CISIN_1g015261mg, LOC102630868

Organism

Citrus sinensis

Taxonomic ID

2711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

C2H2

Protein Properties

Length: 411aa MW: 46506.3 Da PI: 6.073

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
orange1.1g015261m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.5	2.3e-05	67	91	1	23
EEETTTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt..H 23 y+C+ Cgk ++++ L +H+++ H orange1.1g015261m 67 YSCGLCGKGYRSSKALAQHLNSrsH 91 99******************98666 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	0.0099	1	35	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	1.1E-5	3	36	No hit	No description
SMART	SM00355	45	4	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	6	28	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	9.868	67	96	IPR007087	Zinc finger, C2H2
Pfam	PF12874	8.2E-4	67	91	No hit	No description
SMART	SM00451	24	67	98	IPR003604	Zinc finger, U1-type
SMART	SM00355	0.12	67	91	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	8.1E-4	67	94	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.15E-5	67	98	No hit	No description
PROSITE pattern	PS00028	0	69	91	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.7E-7	170	230	No hit	No description
Pfam	PF12756	2.5E-25	185	286	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	21	234	261	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: 411 aa Download sequence Send to blast
MPGLTCNSCN REFNDDAEQK LHYKSDWHRY NLKRKVAGVP GVTEALFLAR QAALAQEKNK 60 NATPMTYSCG LCGKGYRSSK ALAQHLNSRS HIMRASQGTS NEEKEKVIIK PIPLRDVNKP 120 PRKREANNEE SEDSDDEWEE VGPDEVLVSE ATNSLTNLNV GSPADDDLEE DDDDGAFEEF 180 DPACCFMCDL PHDAIENCMV HMHKCHGFFI PDVEYLKDPK GLLTYLGLKV KRDFMCLYCN 240 DRCHPFNSLE AVRKHMEAKR HCKIHFGDGD DEEEAELEEF YDYSSSYMDE DGKQLISSSD 300 MANTVELGGG SELIITKRTD KGTSTKTFGS REYLRYYRQK PRPSPANNVA ITAALASRYK 360 SMGLATVQTR EHMVRMKVIK EMNRTGVEAM RTRVGMKNNI IRNLPKNVPY *

Sequence ? help Back to Top

Protein Sequence Length: 411 aa Download sequence Send to blast

MPGLTCNSCN REFNDDAEQK LHYKSDWHRY NLKRKVAGVP GVTEALFLAR QAALAQEKNK  60
NATPMTYSCG LCGKGYRSSK ALAQHLNSRS HIMRASQGTS NEEKEKVIIK PIPLRDVNKP  120
PRKREANNEE SEDSDDEWEE VGPDEVLVSE ATNSLTNLNV GSPADDDLEE DDDDGAFEEF  180
DPACCFMCDL PHDAIENCMV HMHKCHGFFI PDVEYLKDPK GLLTYLGLKV KRDFMCLYCN  240
DRCHPFNSLE AVRKHMEAKR HCKIHFGDGD DEEEAELEEF YDYSSSYMDE DGKQLISSSD  300
MANTVELGGG SELIITKRTD KGTSTKTFGS REYLRYYRQK PRPSPANNVA ITAALASRYK  360
SMGLATVQTR EHMVRMKVIK EMNRTGVEAM RTRVGMKNNI IRNLPKNVPY *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6qik_z	2e-21	4	381	6	406	Cytoplasmic 60S subunit biogenesis factor REH1
6qt0_z	2e-21	4	381	6	406	Cytoplasmic 60S subunit biogenesis factor REH1
6qtz_z	2e-21	4	381	6	406	Cytoplasmic 60S subunit biogenesis factor REH1
6ri5_z	2e-21	4	381	6	406	Cytoplasmic 60S subunit biogenesis factor REH1
6s05_z	2e-21	4	381	6	406	Cytoplasmic 60S subunit biogenesis factor REH1
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Csi.6841	0.0	flower\| fruit

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 -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006450152.1	0.0	cytoplasmic 60S subunit biogenesis factor REI1 homolog 1
Refseq	XP_006483574.1	0.0	cytoplasmic 60S subunit biogenesis factor REI1 homolog 1
Swissprot	Q8H1G5	0.0	REIL1_ARATH; Cytoplasmic 60S subunit biogenesis factor REI1 homolog 1
TrEMBL	A0A067FV10	0.0	A0A067FV10_CITSI; Uncharacterized protein
TrEMBL	A0A2H5NWK4	0.0	A0A2H5NWK4_CITUN; Uncharacterized protein
TrEMBL	V4UBI5	0.0	V4UBI5_9ROSI; Uncharacterized protein
STRING	XP_006483574.1	0.0	(Citrus sinensis)
STRING	XP_006450152.1	0.0	(Citrus clementina)

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	orange1.1g015261m
Entrez Gene	102630868

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]