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Table 2 List of RNA binding proteins associated with region 27 of the Lif 3′UTR

From: Expression of leukemia inhibitory factor in Müller glia cells is regulated by a redox-dependent mRNA stability mechanism

Protein ID

 

Protein name

Gene name

27 wt versus 27-No Significance

27 wt versus 27-No Rel. levels

Q15717

ELAV-like protein 1

ELAVL1

1.88E-08

8.50

P13693

 

Translationally-controlled tumor protein

TPT1

0.0005

3.69

Q01469

 

Fatty acid-binding protein, epidermal

FABP5

0.0007

3.58

Q12906

Interleukin enhancer-binding factor 3

ILF3

0.0023

3.11

P07741

 

Adenine phosphoribosyltransferase

APRT

0.0065

2.74

O75390

 

Citrate synthase, mitochondrial

CS

0.0069

2.72

Q9Y281

 

Cofilin-2

CFL2

0.0088

2.62

Q15185

 

Prostaglandin E synthase 3

PTGES3

0.0091

2.62

Q04760

 

Lactoylglutathione lyase

GLO1

0.0095

2.60

A6NL28

 

Putative tropomyosin alpha-3 chain-like protein

PTA3CLP

0.0103

2.57

Q12905

Interleukin enhancer-binding factor 2

ILF2

0.0119

2.52

P61956

 

Small ubiquitin-related modifier 2-3-4

SUMO2-3-4

0.0131

2.48

P48735

 

Isocitrate dehydrogenase [NADP], mitochondrial

IDH2

0.0150

2.43

Q96SI9

Spermatid perinuclear RNA-binding protein

STRBP

0.0155

2.42

P62633

 

Cellular nucleic acid-binding protein

CNBP

0.0173

2.38

P09104

 

Gamma-enolase

ENO2

0.0200

2.33

P30086

 

Phosphatidylethanolamine-binding protein 1

PEBP1

0.0214

2.31

P20962

 

Parathymosin

PTMS

0.0219

2.30

P61326

Protein mago nashi homolog-B

MAGOH-B

0.0225

2.29

P50395

 

Rab GDP dissociation inhibitor beta

GDI2

0.0233

2.28

Q14019

 

Coactosin-like protein

COTL1

0.0234

2.27

P07737

 

Profilin-1

PFN1

0.0242

2.26

P00505

 

Aspartate aminotransferase, mitochondrial

GOT2

0.0243

2.26

Q9BTT0

 

Acidic leucine-rich nuclear phosphoprotein 32 family member E

ANP32E

0.0248

2.25

O00299

 

Chloride intracellular channel protein 1

CLIC1

0.0268

2.22

Q9NR31

 

GTP-binding protein SAR1a

SAR1A

0.0280

2.21

Q8NBS9

Thioredoxin domain-containing protein 5

TXNDC5

0.0289

2.20

P29558

RNA-binding motif, single-stranded-interacting protein 1

RBMS1

0.0311

2.17

Q99471

 

Prefoldin subunit 5

PFDN5

0.0330

2.15

P13667

Protein disulfide-isomerase A4

PDIA4

0.0336

2.14

P60903

 

Protein S100-A10

S100A10

0.0365

2.11

P61088

 

Ubiquitin-conjugating enzyme E2 N

UBE2N

0.0381

2.10

P09382

 

Galectin-1

LGALS1

0.0410

2.07

P62834

 

Ras-related protein Rap-1A

RAP1A

0.0428

2.05

P09972

 

Fructose-bisphosphate aldolase C

ALDOC

0.0435

2.05

P30040

 

Endoplasmic reticulum resident protein 29

ERP29

0.0440

2.04

O60493

 

Sorting nexin-3

SNX3

0.0451

2.04

P22626

Heterogeneous nuclear ribonucleoproteins A2/B1

HNRNPA2B1

0.0456

2.03

Q15843

 

NEDD8

NEDD8

0.0464

2.03

P30101

Protein disulfide-isomerase A3

PDIA3

0.0464

2.03

P19338

Nucleolin

NCL

0.0470

2.02

O15511

 

Actin-related protein 2/3 complex subunit 5

ARPC5

0.0481

2.01

P00338

 

L-lactate dehydrogenase A chain

LDHA

0.0501

1.20

Q15121

 

Astrocytic phosphoprotein PEA-15

PEA15

0.0517

1.99

P62937

 

Peptidyl-prolyl cis-trans isomerase A

PPIA

0.0556

1.96

P14174

 

Macrophage migration inhibitory factor

MIF

0.0559

1.96

Q14103

Heterogeneous nuclear ribonucleoprotein D0

HNRNPD

0.0559

1.96

Q99729

Heterogeneous nuclear ribonucleoprotein A/B

HNRNPAB

0.0587

1.94

O14979

Heterogeneous nuclear ribonucleoprotein D-like

HNRPDL

0.0602

1.93

P10599

Thioredoxin

TXN

0.0602

1.93

  1. RNAs of region 27 (‘R27 wt’) and its counterpart ARE-null region 27 (‘R27-No’) were used for RNA binding assays. Bound proteins were identified by quantitative mass spectrometry analysis and relative ratios were determined using total sequence reads for region ‘R27 wt’ and region ‘R27-No’. RNA binding proteins, (stars) and cell redox homeostasis proteins (squares) are indicated as identified by GO pathway analysis,(Additional file 6: File S1). The significance is the significance A P-value as determined by the Perseus software, defining the likelihood of a protein being enriched compared to the background distribution [112].