ExoCarta: Gene summary

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Gene description for XRCC1
Gene name	X-ray repair complementing defective repair in Chinese hamster cells 1
Gene symbol	XRCC1
Other names/aliases	RCC
Species	Homo sapiens
Database cross references - XRCC1
ExoCarta	ExoCarta_7515
Vesiclepedia	VP_7515
Entrez Gene	7515
HGNC	12828
MIM	194360
UniProt	P18887
XRCC1 identified in exosomes derived from the following tissue/cell type
Mesenchymal stem cells	36408942

Gene ontology annotations for XRCC1

Molecular Function
	protein binding	GO:0005515	IPI
	enzyme binding	GO:0019899	IPI
	oxidized DNA binding	GO:0032356	IMP
	poly-ADP-D-ribose binding	GO:0072572	IDA
	ADP-D-ribose modification-dependent protein binding	GO:0160002	IDA
	3' overhang single-stranded DNA endodeoxyribonuclease activity	GO:1990599	IEA
Biological Process
	single strand break repair	GO:0000012	IEA
	response to hypoxia	GO:0001666	IEA
	base-excision repair	GO:0006284	IBA
	base-excision repair	GO:0006284	IDA
	double-strand break repair via nonhomologous end joining	GO:0006303	IEA
	response to xenobiotic stimulus	GO:0009410	IEA
	negative regulation of protein ADP-ribosylation	GO:0010836	IDA
	negative regulation of protein ADP-ribosylation	GO:0010836	IMP
	cerebellum morphogenesis	GO:0021587	IEA
	hippocampus development	GO:0021766	IEA
	response to hydroperoxide	GO:0033194	IDA
	voluntary musculoskeletal movement	GO:0050882	IMP
	telomeric DNA-containing double minutes formation	GO:0061819	IEA
	positive regulation of single strand break repair	GO:1903518	IGI
	positive regulation of single strand break repair	GO:1903518	IMP
	positive regulation of DNA ligase activity	GO:1904877	IMP
	negative regulation of protection from non-homologous end joining at telomere	GO:1905765	IEA
	replication-born double-strand break repair via sister chromatid exchange	GO:1990414	IMP
Subcellular Localization
	chromosome, telomeric region	GO:0000781	IEA
	chromatin	GO:0000785	IDA
	nucleus	GO:0005634	IBA
	nucleoplasm	GO:0005654	IDA
	nucleoplasm	GO:0005654	TAS
	nucleolus	GO:0005730	IDA
	ERCC4-ERCC1 complex	GO:0070522	IEA
	site of DNA damage	GO:0090734	IDA

Experiment description of studies that identified XRCC1 in exosomes

Experiment ID

488

MISEV standards
✔ EM	Biophysical techniques
✔ CD9\|CD81\|CD63\|GAPDH\|SDCBP\|LAMP1\|TFRC\|UCHL1\|FLOT2\|LAMP2\|FLOT1\|ICAM1\|RAB5B\|CD151\|RAB35\|TSG101\|RAB5A\|CD82	Enriched markers
✔ CANX	Negative markers
✔ NTA	Particle analysis

Identified molecule

Protein

Identification method

Mass spectrometry

PubMed ID

36408942

Organism

Homo sapiens

Experiment description

Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells

Authors

"Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ."

Journal name

Proteomics

Publication year

2023

Sample

Mesenchymal stem cells

Sample name

UCMSC

Isolation/purification methods

Differential centrifugation
Filtration
Ultracentrifugation

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Western blotting
Mass spectometry

Protein-protein interactions for XRCC1

Protein Interactor

ExoCarta ID

Identification method

PubMed

Species

SEC22B

9554

Co-fractionation

Homo sapiens

CDC14B

8555

Proximity Label-MS

Homo sapiens

CCL3

Affinity Capture-MS

Homo sapiens

HIST2H2BE

8349

Affinity Capture-MS

Homo sapiens

C6orf62

81688

Affinity Capture-MS

Homo sapiens

GTF2IRD1

Affinity Capture-MS

Homo sapiens

ARL6IP5

10550

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

RPA2

6118

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Proximity Label-MS		Homo sapiens

HIST1H2BG

8339

Proximity Label-MS

Homo sapiens

PBK

Affinity Capture-MS

Homo sapiens

TOP1

7150

Affinity Capture-MS

Homo sapiens

BRD2

Affinity Capture-MS

Homo sapiens

CSNK2A1

1457

Biochemical Activity		Homo sapiens
Affinity Capture-MS		Homo sapiens

CAND1

55832

Affinity Capture-MS

Homo sapiens

RPUSD4

84881

Affinity Capture-MS

Homo sapiens

ST7

Affinity Capture-MS

Homo sapiens

SOX2

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

APEX1

328

Two-hybrid		Homo sapiens
Affinity Capture-Western		Homo sapiens
Far Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

SLC39A10

57181

Affinity Capture-MS

Homo sapiens

CDK2AP1

Affinity Capture-MS

Homo sapiens

MRPL12

6182

Co-fractionation

Homo sapiens

OS9

10956

Affinity Capture-MS

Homo sapiens

KLF6

Affinity Capture-MS

Homo sapiens

TDG

6996

Affinity Capture-Western

Homo sapiens

SMC2

10592

Co-fractionation

Homo sapiens

POLI

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

EED

Affinity Capture-MS

Homo sapiens

CUL1

8454

Affinity Capture-MS

Homo sapiens

CSNK2B

1460

Affinity Capture-MS

Homo sapiens

Cebpb

Affinity Capture-Western

Rattus norvegicus

FOXP1

27086

Affinity Capture-MS

Homo sapiens

E2F4

Affinity Capture-MS

Homo sapiens

EFNA2

Affinity Capture-MS

Homo sapiens

NF2

4771

Affinity Capture-MS

Homo sapiens

GATA4

Affinity Capture-MS

Homo sapiens

RAD23B

5887

Affinity Capture-MS

Homo sapiens

POLD1

5424

Affinity Capture-Western

Homo sapiens

FOXA1

Affinity Capture-MS

Homo sapiens

HIST1H4A

8359

Affinity Capture-MS

Homo sapiens

PPIH

10465

Affinity Capture-MS

Homo sapiens

TP53

7157

Affinity Capture-Western

Homo sapiens

APLF

Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Co-purification		Homo sapiens

PNKP

11284

Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Far Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

OGG1

Reconstituted Complex		Homo sapiens
Two-hybrid		Homo sapiens

FOXD3

Affinity Capture-MS

Homo sapiens

UBAP2L

9898

Co-fractionation

Homo sapiens

NCAPD2

9918

Co-fractionation

Homo sapiens

PCDHB11

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

RNF146

Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Biochemical Activity		Homo sapiens

CBX3

11335

Proximity Label-MS

Homo sapiens

UBE2I

7329

Biochemical Activity		Homo sapiens
Biochemical Activity		Homo sapiens

HIST1H2AM

8336

Affinity Capture-MS

Homo sapiens

RAP1B

5908

Affinity Capture-MS

Homo sapiens

GCC1

79571

Affinity Capture-MS

Homo sapiens

BTF3

689

Affinity Capture-MS

Homo sapiens

RAN

5901

Affinity Capture-Western

Homo sapiens

NTRK1

4914

Affinity Capture-MS

Homo sapiens

AIM2

Affinity Capture-MS

Homo sapiens

RNF166

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

SRF

Affinity Capture-MS

Homo sapiens

SF3B6

51639

Affinity Capture-MS

Homo sapiens

KLF10

Affinity Capture-MS

Homo sapiens

HECTD1

25831

Affinity Capture-MS

Homo sapiens

APTX

Affinity Capture-Western		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-Western		Homo sapiens
Reconstituted Complex		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Reconstituted Complex		Homo sapiens
Affinity Capture-Western		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens

POLB

5423

Two-hybrid		Homo sapiens
Reconstituted Complex		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Reconstituted Complex		Homo sapiens
Affinity Capture-MS		Homo sapiens
Reconstituted Complex		Homo sapiens
Reconstituted Complex		Homo sapiens
Far Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Reconstituted Complex		Homo sapiens
Far Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens

TIMELESS

Co-fractionation

Homo sapiens

CEBPA

Proximity Label-MS

Homo sapiens

HIST1H2AB

8335

Affinity Capture-MS

Homo sapiens

PIPSL

266971

Affinity Capture-MS

Homo sapiens

CD3EAP

Proximity Label-MS

Homo sapiens

NUMA1

4926

Affinity Capture-MS

Homo sapiens

ZAK

51776

Affinity Capture-MS

Homo sapiens

HIST1H3A

8350

Proximity Label-MS

Homo sapiens

XPO1

7514

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

S100A16

140576

Co-fractionation

Homo sapiens

SMC4

10051

Co-fractionation

Homo sapiens

ANXA1

301

Protein-peptide

Homo sapiens

POLK

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

SKP2

Affinity Capture-MS

Homo sapiens

RPS6

6194

Proximity Label-MS

Homo sapiens

TDP1

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

UHRF2

Reconstituted Complex		Homo sapiens
Biochemical Activity		Homo sapiens
Affinity Capture-Western		Homo sapiens

SEPT11

55752

Co-fractionation

Homo sapiens

DLX6

Affinity Capture-MS

Homo sapiens

EMX2

Affinity Capture-MS

Homo sapiens

HIST1H3B

8358

Affinity Capture-MS

Homo sapiens

PARG

8505

Negative Genetic

Homo sapiens

NCAPH

23397

Co-fractionation

Homo sapiens

XPOT

11260

Affinity Capture-MS

Homo sapiens

RPA3

6119

Affinity Capture-MS		Homo sapiens
Proximity Label-MS		Homo sapiens

Tpx2

Affinity Capture-MS

Mus musculus

HIST1H2BA

255626

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

RPL35A

6165

Affinity Capture-MS

Homo sapiens

BRD4

23476

Affinity Capture-MS

Homo sapiens

Junb

Affinity Capture-MS

Mus musculus

PPFIA1

8500

Affinity Capture-MS

Homo sapiens

NFATC2

Affinity Capture-MS

Homo sapiens

BRD3

8019

Affinity Capture-MS

Homo sapiens

PRKDC

5591

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens

100

NCAPG

64151

Affinity Capture-Western		Homo sapiens
Co-fractionation		Homo sapiens

101

RBBP8

Affinity Capture-MS

Homo sapiens

102

H2AFX

3014

Affinity Capture-MS

Homo sapiens

103

PPT1

5538

Co-fractionation

Homo sapiens

104

PLEKHA4

57664

Affinity Capture-MS

Homo sapiens

105

Prkci

Affinity Capture-MS

Mus musculus

106

PARP1

142

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Proximity Label-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens
Co-fractionation		Homo sapiens
Affinity Capture-Western		Homo sapiens
Two-hybrid		Homo sapiens
Reconstituted Complex		Homo sapiens
Affinity Capture-MS		Homo sapiens

107

LIG3

3980

Reconstituted Complex		Homo sapiens
Affinity Capture-MS		Homo sapiens
Two-hybrid		Homo sapiens
Affinity Capture-MS		Homo sapiens
Co-purification		Homo sapiens
Affinity Capture-Western		Homo sapiens
Reconstituted Complex		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Co-fractionation		Homo sapiens

108

MAX

Affinity Capture-MS

Homo sapiens

109

XRCC6

2547

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

110

FOXB1

Affinity Capture-MS

Homo sapiens

111

RPA1

6117

Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

112

MEN1

4221

Affinity Capture-MS

Homo sapiens

113

HMGN5

79366

Affinity Capture-MS

Homo sapiens

114

CHD1L

9557

Affinity Capture-Western		Homo sapiens
Affinity Capture-MS		Homo sapiens
Affinity Capture-MS		Homo sapiens

115

HSP90AA1

3320

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

116

CREB1

Affinity Capture-MS

Homo sapiens

117

PARP2

Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

118

PCNA

5111

Affinity Capture-Western		Homo sapiens
FRET		Homo sapiens
Affinity Capture-Western		Homo sapiens
Affinity Capture-Western		Homo sapiens
Reconstituted Complex		Homo sapiens
Co-localization		Homo sapiens
Affinity Capture-MS		Homo sapiens

119

RBM4

5936

Co-fractionation

Homo sapiens

120

NEIL1

Affinity Capture-MS		Homo sapiens
Reconstituted Complex		Homo sapiens

121

DPH7

Affinity Capture-MS

Homo sapiens

122

BRPF1

Affinity Capture-MS

Homo sapiens

123

CIT

11113

Affinity Capture-MS

Homo sapiens

124

C1QBP

708

Affinity Capture-MS

Homo sapiens

125

TOPORS

Far Western		Homo sapiens
Affinity Capture-Western		Homo sapiens

126

CUL7

9820

Affinity Capture-MS

Homo sapiens

127

VNN1

8876

Affinity Capture-MS

Homo sapiens

128

SSRP1

6749

Affinity Capture-MS

Homo sapiens

129

HIST1H2AE

3012

Affinity Capture-MS

Homo sapiens

View the network

Pathways in which XRCC1 is involved

Pathway	Evidence	Source
APEX1-Independent Resolution of AP Sites via the Single Nucleotide Replacement Pathway	TAS	Reactome
Base Excision Repair	TAS	Reactome
DNA Double-Strand Break Repair	TAS	Reactome
DNA Repair	TAS	Reactome
Gap-filling DNA repair synthesis and ligation in GG-NER	TAS	Reactome
Gap-filling DNA repair synthesis and ligation in TC-NER	TAS	Reactome
Global Genome Nucleotide Excision Repair (GG-NER)	TAS	Reactome
HDR through MMEJ (alt-NHEJ)	TAS	Reactome
Homology Directed Repair	TAS	Reactome
Nucleotide Excision Repair	TAS	Reactome
Resolution of Abasic Sites (AP sites)	TAS	Reactome
Resolution of AP sites via the single-nucleotide replacement pathway	TAS	Reactome
Transcription-Coupled Nucleotide Excision Repair (TC-NER)	TAS	Reactome

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