ExoCarta: Gene summary

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Gene description for Rps3a1
Gene name	ribosomal protein S3A1
Gene symbol	Rps3a1
Other names/aliases	Rps3a
Species	Mus musculus
Database cross references - Rps3a1
ExoCarta	ExoCarta_20091
Vesiclepedia	VP_20091
Entrez Gene	20091
UniProt	P97351
Rps3a1 identified in sEVs derived from the following tissue/cell type
Colon cancer cells	37309723
Mast cells	17486113
Pancreatic cells	19351151
T-cell lymphoma cells	37309723

Gene ontology annotations for Rps3a1

Molecular Function
	mRNA binding	GO:0003729	ISO
	structural constituent of ribosome	GO:0003735	IDA
	structural constituent of ribosome	GO:0003735	ISO
	protein binding	GO:0005515	IPI
	translation initiation factor binding	GO:0031369	ISO
	mRNA 5'-UTR binding	GO:0048027	ISO
Biological Process
	cytoplasmic translation	GO:0002181	NAS
	translation	GO:0006412	ISO
	translation	GO:0006412	ISS
	cell differentiation	GO:0030154	IEA
	ribosomal small subunit biogenesis	GO:0042274	ISO
	ribosomal small subunit biogenesis	GO:0042274	ISS
	negative regulation of apoptotic process	GO:0043066	ISO
	negative regulation of apoptotic process	GO:0043066	ISS
Subcellular Localization
	nucleus	GO:0005634	IDA
	nucleolus	GO:0005730	IEA
	nucleolus	GO:0005730	ISO
	cytoplasm	GO:0005737	ISO
	cytoplasm	GO:0005737	NAS
	endoplasmic reticulum	GO:0005783	ISO
	cytosol	GO:0005829	IBA
	cytosol	GO:0005829	IDA
	cytosol	GO:0005829	ISO
	cytosol	GO:0005829	TAS
	ribosome	GO:0005840	NAS
	small ribosomal subunit	GO:0015935	ISO
	cytosolic ribosome	GO:0022626	ISO
	cytosolic small ribosomal subunit	GO:0022627	IDA
	cytosolic small ribosomal subunit	GO:0022627	ISO
	cytosolic small ribosomal subunit	GO:0022627	NAS
	small-subunit processome	GO:0032040	ISO
	small-subunit processome	GO:0032040	ISS
	synapse	GO:0045202	EXP
	synapse	GO:0045202	IDA
	postsynapse	GO:0098794	NAS
	ribonucleoprotein complex	GO:1990904	ISO
	ribonucleoprotein complex	GO:1990904	ISS

Experiment description of studies that identified Rps3a1 in sEVs

Experiment ID

907

MISEV standards
✔ EM	Biophysical techniques
✔ Tsg101\|Sdcbp\|Cd151\|Gapdh\|Lamp2\|Cd81\|Cd82\|Cd9\|Cd63\|Cd80\|Flot2\|Tfrc\|Rab35\|Rab5a	Enriched markers
✔ HSPA5	Negative markers
✔ NTA	Particle analysis

Identified molecule

Protein

Identification method

Mass spectrometry

PubMed ID

37309723

Organism

Mus musculus

Experiment description

Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells

Authors

"Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."

Journal name

Proteomics

Publication year

2023

Sample

Colon cancer cells

Sample name

C26

Isolation/purification methods

Differential centrifugation
Ultracentrifugation

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Western blotting
Mass spectrometry

Experiment ID

MISEV standards
✔ EM	Biophysical techniques
✔ CD63	Enriched markers
✘	Negative markers
✘	Particle analysis

Identified molecule

protein

Identification method

Mass spectrometry

PubMed ID

17486113

Organism

Mus musculus
Homo sapiens

Experiment description

Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells.

Authors

"Valadi H, Ekstrom K, Bossios A, Sjostrand M, Lee JJ, Lotvall JO"

Journal name

NCB

Publication year

2007

Sample

Mast cells

Sample name

MC9
Bone marrow-derived mast cells
HMC-1

Isolation/purification methods

Filtration
Ultracentrifugation
Sucrose density gradient

Flotation density

1.11-1.21 g/mL

Molecules identified in the study

Protein
mRNA
miRNA

Methods used in the study

Mass spectrometry [MALDI TOF]
Western blotting
Microarray
miRCURY LNA Array

Experiment ID

MISEV standards
✔ EM	Biophysical techniques
✔ CD63	Enriched markers
✘	Negative markers
✘	Particle analysis

Identified molecule

mrna

Identification method

Microarray

PubMed ID

17486113

Organism

Mus musculus
Homo sapiens

Experiment description

Exosome-mediated transfer of mRNAs and microRNAs is a novel mechanism of genetic exchange between cells.

Authors

"Valadi H, Ekstrom K, Bossios A, Sjostrand M, Lee JJ, Lotvall JO"

Journal name

NCB

Publication year

2007

Sample

Mast cells

Sample name

MC9
Bone marrow-derived mast cells
HMC-1

Isolation/purification methods

Filtration
Ultracentrifugation
Sucrose density gradient

Flotation density

1.11-1.21 g/mL

Molecules identified in the study

Protein
mRNA
miRNA

Methods used in the study

Mass spectrometry [MALDI TOF]
Western blotting
Microarray
miRCURY LNA Array

Experiment ID

188

MISEV standards
✔ EM	Biophysical techniques
✔ GAPDH\|UCHL1\|HSP90	Enriched markers
✘	Negative markers
✘	Particle analysis

Identified molecule

protein

Identification method

Mass spectrometry

PubMed ID

19351151

Organism

Mus musculus

Experiment description

Characterization of vesicles secreted from insulinoma NIT-1 cells.

Authors

"Lee HS, Jeong J, Lee KJ."

Journal name

J Proteome Res

Publication year

2009

Sample

Pancreatic cells

Sample name

Pancreatic beta cell (NIT-1)

Isolation/purification methods

Differential centrifugation
Sucrose density gradient

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Mass spectrometry

Experiment ID

908

MISEV standards
✔ EM	Biophysical techniques
✔ Tsg101\|Sdcbp\|Cd151\|Gapdh\|Lamp2\|Cd81\|Cd82\|Cd9\|Cd63\|Cd80\|Flot2\|Tfrc\|Rab35\|Rab5a	Enriched markers
✔ HSPA5	Negative markers
✔ NTA	Particle analysis

Identified molecule

Protein

Identification method

Mass spectrometry

PubMed ID

37309723

Organism

Mus musculus

Experiment description

Proteomic analysis of the small extracellular vesicles and soluble secretory proteins from cachexia inducing and non-inducing cancer cells

Authors

"Chitti SV, Kang T, Fonseka P, Marzan AL, Stewart S, Shahi S, Bramich K, Ang CS, Pathan M, Gummadi S, Mathivanan S."

Journal name

Proteomics

Publication year

2023

Sample

T-cell lymphoma cells

Sample name

EL4

Isolation/purification methods

Differential centrifugation
Ultracentrifugation

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Western blotting
Mass spectrometry

Protein-protein interactions for Rps3a1

Protein Interactor

ExoCarta ID

Identification method

PubMed

Species

Rps3

27050

Co-fractionation

Mus musculus

Rplp0

11837

Co-fractionation

Mus musculus

Atxn2

20239

Co-fractionation

Mus musculus

Rpl27

19942

Co-fractionation

Mus musculus

Ybx1

22608

Co-fractionation

Mus musculus

Fmr1

Co-fractionation

Mus musculus

Rpl6

19988

Co-fractionation

Mus musculus

Rps24

20088

Co-fractionation

Mus musculus

Ncl

17975

Co-fractionation

Mus musculus

Actb

11461

Co-fractionation

Mus musculus

Rpl35a

57808

Co-fractionation

Mus musculus

Tmem173

Proximity Label-MS

Mus musculus

Rpl7

19989

Co-fractionation

Mus musculus

Eef1a1

13627

Co-fractionation

Mus musculus

Plod3

26433

Co-fractionation

Mus musculus

AI314180

230249

Co-fractionation

Mus musculus

Sra1

Co-fractionation

Mus musculus

Pknox1

Affinity Capture-MS

Mus musculus

Rpl26

19941

Co-fractionation

Mus musculus

Rpsa

16785

Co-fractionation

Mus musculus

Rpl3

27367

Co-fractionation

Mus musculus

Abce1

24015

Co-fractionation

Mus musculus

Rpl11

67025

Co-fractionation

Mus musculus

Eed

Affinity Capture-MS

Mus musculus

Rps10

67097

Co-fractionation

Mus musculus

Eif5a

276770

Co-fractionation

Mus musculus

Rplp2

67186

Co-fractionation

Mus musculus

Rps4x

20102

Co-fractionation

Mus musculus

Trove2

20822

Co-fractionation

Mus musculus

Rps23

66475

Co-fractionation

Mus musculus

Scyl2

Co-fractionation

Mus musculus

Tfe3

Affinity Capture-MS

Mus musculus

Rpl24

68193

Co-fractionation

Mus musculus

PLEKHO1

51177

Two-hybrid

Homo sapiens

Rps7

20115

Co-fractionation

Mus musculus

Rpl29

19944

Co-fractionation

Mus musculus

Pabpc1

18458

Co-fractionation

Mus musculus

Gtf2f1

Co-fractionation

Mus musculus

Rps5

20103

Co-fractionation

Mus musculus

Actn4

60595

Co-fractionation

Mus musculus

Rps15a

267019

Co-fractionation

Mus musculus

Fancd2

Affinity Capture-MS

Mus musculus

Dhx9

13211

Co-fractionation

Mus musculus

Sqstm1

Affinity Capture-MS

Mus musculus

Rpl30

19946

Co-fractionation

Mus musculus

Rps27

57294

Co-fractionation

Mus musculus

Rps16

20055

Co-fractionation

Mus musculus

Zfp330

Co-fractionation

Mus musculus

Rps17

20068

Co-fractionation

Mus musculus

Kcna3

Affinity Capture-MS

Mus musculus

Sf3a3

75062

Co-fractionation

Mus musculus

Dhx29

Co-fractionation

Mus musculus

Rps18

20084

Co-fractionation

Mus musculus

Rpl13a

22121

Co-fractionation

Mus musculus

Hspa8

15481

Co-fractionation

Mus musculus

Rpl14

67115

Co-fractionation

Mus musculus

Rps2

16898

Co-fractionation

Mus musculus

Gapdh

14433

Co-fractionation

Mus musculus

Rps8

20116

Co-fractionation

Mus musculus

Snd1

56463

Co-fractionation

Mus musculus

Rpl32

19951

Co-fractionation

Mus musculus

Rps28

54127

Co-fractionation

Mus musculus

Rps19

20085

Co-fractionation

Mus musculus

Tpt1

22070

Co-fractionation

Mus musculus

Rps11

27207

Co-fractionation

Mus musculus

Rpl18a

76808

Co-fractionation

Mus musculus

Lrrc59

Co-fractionation

Mus musculus

Rpl22

19934

Co-fractionation

Mus musculus

Rpl19

19921

Co-fractionation

Mus musculus

Rps6

20104

Co-fractionation

Mus musculus

Hnrnpab

15384

Co-fractionation

Mus musculus

Rpl38

Co-fractionation

Mus musculus

Syncrip

56403

Co-fractionation

Mus musculus

Rps21

66481

Co-fractionation

Mus musculus

Rps14

20044

Co-fractionation

Mus musculus

Rps9

76846

Co-fractionation

Mus musculus

Rpl35

66489

Co-fractionation

Mus musculus

Dhfr

13361

Co-fractionation

Mus musculus

Rpl5

100503670

Co-fractionation

Mus musculus

Rps20

67427

Co-fractionation

Mus musculus

Rps12

20042

Co-fractionation

Mus musculus

Rps27a

78294

Co-fractionation

Mus musculus

Ncbp1

433702

Co-fractionation

Mus musculus

Rps25

75617

Co-fractionation

Mus musculus

Top1

21969

Co-fractionation

Mus musculus

Kctd13

Affinity Capture-MS

Mus musculus

Rpgrip1l

Affinity Capture-MS

Mus musculus

Ccdc55

Co-fractionation

Mus musculus

Prpf3

70767

Co-fractionation

Mus musculus

Fzr1

Affinity Capture-MS

Mus musculus

Eef2

13629

Co-fractionation

Mus musculus

Rpl12

269261

Co-fractionation

Mus musculus

Rpl18

19899

Co-fractionation

Mus musculus

Gnb2l1

14694

Co-fractionation

Mus musculus

Rps15

20054

Co-fractionation

Mus musculus

Npm1

18148

Affinity Capture-MS

Mus musculus

Rps13

68052

Co-fractionation

Mus musculus

Hnrnpa2b1

53379

Co-fractionation

Mus musculus

Rpl23

65019

Co-fractionation

Mus musculus

100

Rpl23a

268449

Co-fractionation

Mus musculus

101

Rpl15

66480

Co-fractionation

Mus musculus

102

Eef1b2

55949

Co-fractionation

Mus musculus

103

Rpl4

67891

Co-fractionation

Mus musculus

104

Hba

15121

Co-fractionation

Mus musculus

105

Rpl13

270106

Co-fractionation

Mus musculus

106

Rpl8

26961

Co-fractionation

Mus musculus

View the network

Pathways in which Rps3a1 is involved

Pathway	Evidence	Source
Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S	IEA	Reactome
Cap-dependent Translation Initiation	IEA	Reactome
Eukaryotic Translation Initiation	IEA	Reactome
Formation of a pool of free 40S subunits	IEA	Reactome
Formation of the ternary complex, and subsequently, the 43S complex	IEA	Reactome
GTP hydrolysis and joining of the 60S ribosomal subunit	IEA	Reactome
L13a-mediated translational silencing of Ceruloplasmin expression	IEA	Reactome
Major pathway of rRNA processing in the nucleolus and cytosol	IEA	Reactome
Metabolism of proteins	IEA	Reactome
Metabolism of RNA	IEA	Reactome
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	IEA	Reactome
Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)	IEA	Reactome
Nonsense-Mediated Decay (NMD)	IEA	Reactome
Ribosomal scanning and start codon recognition	IEA	Reactome
rRNA processing	IEA	Reactome
rRNA processing in the nucleus and cytosol	IEA	Reactome
SRP-dependent cotranslational protein targeting to membrane	IEA	Reactome
Translation	IEA	Reactome
Translation initiation complex formation	IEA	Reactome

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