ExoCarta: Gene summary

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Gene description for NDE1
Gene name	nudE neurodevelopment protein 1
Gene symbol	NDE1
Other names/aliases	HOM-TES-87 LIS4 MHAC NDE NUDE NUDE1
Species	Homo sapiens
Database cross references - NDE1
ExoCarta	ExoCarta_54820
Vesiclepedia	VP_54820
Entrez Gene	54820
HGNC	17619
MIM	609449
UniProt	Q9NXR1
NDE1 identified in sEVs derived from the following tissue/cell type
Mesenchymal stem cells	36408942
Urine	21595033
Urine	21595033
Urine	21595033

Gene ontology annotations for NDE1

Molecular Function
	protein binding	GO:0005515	IPI
	microtubule binding	GO:0008017	IBA
	microtubule binding	GO:0008017	ISS
	identical protein binding	GO:0042802	IPI
Biological Process
	establishment of mitotic spindle orientation	GO:0000132	IBA
	establishment of mitotic spindle orientation	GO:0000132	IMP
	neuron migration	GO:0001764	IEA
	microtubule nucleation	GO:0007020	IBA
	chromosome segregation	GO:0007059	IBA
	mitotic centrosome separation	GO:0007100	IBA
	neuroblast proliferation	GO:0007405	IEA
	cell migration	GO:0016477	IBA
	cerebral cortex development	GO:0021987	IMP
	vesicle transport along microtubule	GO:0047496	IBA
	centrosome duplication	GO:0051298	ISS
	cell division	GO:0051301	IEA
	establishment of chromosome localization	GO:0051303	IBA
	establishment of chromosome localization	GO:0051303	IMP
	centrosome localization	GO:0051642	IBA
Subcellular Localization
	kinetochore	GO:0000776	IBA
	kinetochore	GO:0000776	IDA
	centrosome	GO:0005813	IBA
	centrosome	GO:0005813	IDA
	cytosol	GO:0005829	TAS
	kinesin complex	GO:0005871	IBA
	microtubule	GO:0005874	IEA
	membrane	GO:0016020	HDA
	spindle pole centrosome	GO:0031616	ISS
	cleavage furrow	GO:0032154	IEA
	synapse	GO:0045202	IEA

Experiment description of studies that identified NDE1 in sEVs

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

Experiment ID

193

MISEV standards
✔ EM	Biophysical techniques
✔ CD63\|CD9	Enriched markers
✔ PHB	Negative markers
✘	Particle analysis

Identified molecule

protein

Identification method

Mass spectrometry

PubMed ID

21595033

Organism

Homo sapiens

Experiment description

Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy.

Authors

"Moon PG, Lee JE, You S, Kim TK, Cho JH, Kim IS, Kwon TH, Kim CD, Park SH, Hwang D, Kim YL, Baek MC."

Journal name

Proteomics

Publication year

2011

Sample

Urine

Sample name

Urine - Normal

Isolation/purification methods

Differential centrifugation
Ultracentrifugation
Sucrose density gradient

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Mass spectrometry

Experiment ID

194

MISEV standards
✘	Biophysical techniques
✘	Enriched markers
✘	Negative markers
✘	Particle analysis

Identified molecule

protein

Identification method

Mass spectrometry

PubMed ID

21595033

Organism

Homo sapiens

Experiment description

Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy.

Authors

"Moon PG, Lee JE, You S, Kim TK, Cho JH, Kim IS, Kwon TH, Kim CD, Park SH, Hwang D, Kim YL, Baek MC."

Journal name

Proteomics

Publication year

2011

Sample

Urine

Sample name

Urine - Patients of basement membrane nephropathy

Isolation/purification methods

Differential centrifugation
Ultracentrifugation
Sucrose density gradient

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Mass spectrometry

Experiment ID

195

MISEV standards
✘	Biophysical techniques
✘	Enriched markers
✘	Negative markers
✘	Particle analysis

Identified molecule

protein

Identification method

Mass spectrometry

PubMed ID

21595033

Organism

Homo sapiens

Experiment description

Proteomic analysis of urinary exosomes from patients of early IgA nephropathy and thin basement membrane nephropathy.

Authors

"Moon PG, Lee JE, You S, Kim TK, Cho JH, Kim IS, Kwon TH, Kim CD, Park SH, Hwang D, Kim YL, Baek MC."

Journal name

Proteomics

Publication year

2011

Sample

Urine

Sample name

Urine - Patients of early IgA nephropathy

Isolation/purification methods

Differential centrifugation
Ultracentrifugation
Sucrose density gradient

Flotation density

Molecules identified in the study

Protein

Methods used in the study

Mass spectrometry

Protein-protein interactions for NDE1

Protein Interactor

ExoCarta ID

Identification method

PubMed

Species

CCSER1

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

TSNARE1

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

FAM167A

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

SYCE1

Affinity Capture-MS

Homo sapiens

PTX3

5806

Affinity Capture-MS

Homo sapiens

YWHAE

7531

Affinity Capture-MS

Homo sapiens

REL

5966

Two-hybrid

Homo sapiens

Calml3

Affinity Capture-MS

Mus musculus

FAM9B

Two-hybrid

Homo sapiens

CCDC183

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

ZNF398

Two-hybrid

Homo sapiens

STX11

8676

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

NDE1

54820

Two-hybrid		Homo sapiens
Two-hybrid		Homo sapiens

KRT40

Affinity Capture-MS

Homo sapiens

YWHAG

7532

Affinity Capture-MS

Homo sapiens

TFIP11

Two-hybrid

Homo sapiens

UBQLN1

29979

Two-hybrid

Homo sapiens

ARNT2

Two-hybrid

Homo sapiens

GGA1

26088

Affinity Capture-MS

Homo sapiens

DYNLL1

8655

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

APIP

51074

Affinity Capture-MS

Homo sapiens

YWHAH

7533

Affinity Capture-MS

Homo sapiens

Ccser2

Affinity Capture-MS

Mus musculus

AMZ2

Affinity Capture-MS

Homo sapiens

AP4E1

Affinity Capture-MS

Homo sapiens

Lima1

Affinity Capture-MS

Mus musculus

MED4

29079

Two-hybrid

Homo sapiens

Gpkow

Affinity Capture-MS

Mus musculus

NINL

Proximity Label-MS

Homo sapiens

C15orf59

Affinity Capture-MS

Homo sapiens

LCOR

84458

Affinity Capture-MS

Homo sapiens

S100A2

6273

Affinity Capture-MS

Homo sapiens

TCP10L

Affinity Capture-MS

Homo sapiens

MCC

4163

Affinity Capture-MS

Homo sapiens

CHIA

Affinity Capture-MS

Homo sapiens

Ndel1

Affinity Capture-MS

Mus musculus

MAPRE1

22919

Affinity Capture-MS

Homo sapiens

GOLGA2

2801

Two-hybrid

Homo sapiens

FAM124A

Affinity Capture-MS

Homo sapiens

Pafah1b1

18472

Affinity Capture-MS		Mus musculus
Affinity Capture-MS		Mus musculus

YWHAQ

10971

Reconstituted Complex

Homo sapiens

CCDC22

28952

Affinity Capture-MS

Homo sapiens

Kif20b

Affinity Capture-MS

Mus musculus

DYNLL2

140735

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

SNAP29

9342

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

DISC1

27185

Two-hybrid		Homo sapiens
Affinity Capture-MS		Homo sapiens

OR52B2

Affinity Capture-MS

Homo sapiens

PICK1

Affinity Capture-MS

Homo sapiens

TCP10

Affinity Capture-MS

Homo sapiens

ZBTB2

57621

Affinity Capture-MS

Homo sapiens

WHAMMP3

Affinity Capture-MS

Homo sapiens

XPO1

7514

Affinity Capture-MS

Homo sapiens

TEKT4

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

YWHAZ

7534

Affinity Capture-MS

Homo sapiens

DCAF13

25879

Affinity Capture-MS

Homo sapiens

CTTN

2017

Affinity Capture-MS

Homo sapiens

NUP54

53371

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

Nde1

Affinity Capture-MS

Mus musculus

NXF1

10482

Affinity Capture-RNA

Homo sapiens

LZTS2

84445

Two-hybrid

Homo sapiens

CEP250

11190

Affinity Capture-MS

Homo sapiens

KIF1BP

26128

Affinity Capture-MS

Homo sapiens

NIN

51199

Proximity Label-MS

Homo sapiens

CSNK2A2

1459

Affinity Capture-MS

Homo sapiens

RAB9A

9367

Proximity Label-MS

Homo sapiens

TRIM27

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

ARC

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

NDC80

10403

Two-hybrid

Homo sapiens

JUNB

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

FBLIM1

54751

Affinity Capture-MS

Homo sapiens

USHBP1

Two-hybrid

Homo sapiens

WAC

Two-hybrid

Homo sapiens

GRAMD1B

Affinity Capture-MS

Homo sapiens

TPM3

7170

Affinity Capture-MS

Homo sapiens

PAFAH1B1

5048

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

EIF3F

8665

Affinity Capture-MS

Homo sapiens

HOXA2

Two-hybrid

Homo sapiens

TTC1

7265

Two-hybrid

Homo sapiens

TUBG1

7283

Affinity Capture-Western

Homo sapiens

BZRAP1

Two-hybrid

Homo sapiens

YWHAB

7529

Affinity Capture-MS

Homo sapiens

MKRN3

Two-hybrid

Homo sapiens

CGNL1

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

BRK1

55845

Affinity Capture-MS

Homo sapiens

TCL1B

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

MOV10

4343

Affinity Capture-RNA

Homo sapiens

KXD1

79036

Affinity Capture-MS

Homo sapiens

NDEL1

81565

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

CLPTM1L

81037

Affinity Capture-MS

Homo sapiens

PRPF19

27339

Affinity Capture-MS

Homo sapiens

367

Two-hybrid

Homo sapiens

C17orf59

54785

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

NPTX2

Affinity Capture-MS

Homo sapiens

View the network

Pathways in which NDE1 is involved

Pathway	Evidence	Source
Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal	TAS	Reactome
Amplification of signal from the kinetochores	TAS	Reactome
Anchoring of the basal body to the plasma membrane	TAS	Reactome
AURKA Activation by TPX2	TAS	Reactome
Cell Cycle	TAS	Reactome
Cell Cycle Checkpoints	TAS	Reactome
Cell Cycle, Mitotic	TAS	Reactome
Centrosome maturation	TAS	Reactome
Cilium Assembly	TAS	Reactome
EML4 and NUDC in mitotic spindle formation	TAS	Reactome
G2/M Transition	TAS	Reactome
Loss of Nlp from mitotic centrosomes	TAS	Reactome
Loss of proteins required for interphase microtubule organization from the centrosome	TAS	Reactome
M Phase	TAS	Reactome
Mitotic Anaphase	TAS	Reactome
Mitotic G2-G2/M phases	TAS	Reactome
Mitotic Metaphase and Anaphase	TAS	Reactome
Mitotic Prometaphase	TAS	Reactome
Mitotic Spindle Checkpoint	TAS	Reactome
Organelle biogenesis and maintenance	TAS	Reactome
Recruitment of mitotic centrosome proteins and complexes	TAS	Reactome
Recruitment of NuMA to mitotic centrosomes	TAS	Reactome
Regulation of PLK1 Activity at G2/M Transition	TAS	Reactome
Resolution of Sister Chromatid Cohesion	TAS	Reactome
RHO GTPase Effectors	TAS	Reactome
RHO GTPases Activate Formins	TAS	Reactome
Separation of Sister Chromatids	TAS	Reactome
Signal Transduction	TAS	Reactome
Signaling by Rho GTPases	TAS	Reactome
Signaling by Rho GTPases, Miro GTPases and RHOBTB3	TAS	Reactome

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