Protein: ATG4B
Cysteine protease ATG4B (EC 3.4.22.-) (AUT-like 1 cysteine endopeptidase) (Autophagy-related cysteine endopeptidase 1) (Autophagin-1) (Autophagy-related protein 4 homolog B) (HsAPG4B) (hAPG4B)

Gene: ATG4B
Organism: Homo sapiens
Interactions: 123
UniProt ID: Q9Y4P1

Gene Ontology (top 5):
GO:0000045 - autophagosome assembly
GO:0000421 - autophagosome membrane
GO:0000423 - mitophagy
GO:0004175 - endopeptidase activity
GO:0004197 - cysteine-type endopeptidase activity

Download interactions: TXT   MITAB-2.5

Interaction Interactor Experiments Homologs Category Interaction
Score
Confidence

1428440

MLP3B
Microtubule-associated protein 1 light chain 3 beta

13

20

Small-scale

0.985

High

952394

GBRL2
Gamma-aminobutyric acid receptor-associated protein-like 2

10

20

Small-scale

0.981

High

1430374

GBRL1
Gamma-aminobutyric acid receptor-associated protein-like 1

8

20

Small-scale

0.977

High

328206

GBRAP
Gamma-aminobutyric acid receptor-associated protein

7

20

Small-scale

0.972

High

1433257

MLP3A
Microtubule-associated protein 1 light chain 3 alpha

8

20

Small-scale

0.965

High

1417426

MLP3C
Microtubule-associated protein 1 light chain 3 gamma

5

20

Small-scale

0.928

High

64586

MP3B2
Microtubule-associated protein 1 light chain 3 beta 2

1

20

High-throughput

0.691

High

1349495

FANK1
Fibronectin type 3 and ankyrin repeat domains protein 1

3

0

High-throughput

0.638

High

291885

STK16
Serine/threonine-protein kinase 16

2

1

High-throughput

0.628

High

1491443

ATG4B
Cysteine protease ATG4B

1

2

High-throughput

0.575

High

1240990

S27A4
Long-chain fatty acid transport protein 4

1

0

Small-scale

0.537

High

279240

ULK1
Serine/threonine-protein kinase ULK1

1

1

High-throughput

0.536

High

334133

SMC2
Structural maintenance of chromosomes protein 2

1

1

High-throughput

0.536

High

346556

STAU1
Double-stranded RNA-binding protein Staufen homolog 1

1

1

High-throughput

0.536

High

550543

PABP1
Polyadenylate-binding protein 1

1

1

High-throughput

0.536

High

832159

IF2G
Eukaryotic translation initiation factor 2 subunit 3

1

1

High-throughput

0.536

High

877264

KC1D
Casein kinase I isoform delta

1

1

High-throughput

0.536

High

885931

KC1E
Casein kinase I isoform epsilon

1

1

High-throughput

0.536

High

972804

RS23
Small ribosomal subunit protein uS12

1

1

High-throughput

0.536

High

1089939

ILF3
Interleukin enhancer-binding factor 3

1

1

High-throughput

0.536

High

1102143

PABP4
Polyadenylate-binding protein 4

1

1

High-throughput

0.536

High

1407977

ANM1
Protein arginine N-methyltransferase 1

1

1

High-throughput

0.536

High

1430732

ATG10
Ubiquitin-like-conjugating enzyme ATG10

1

1

High-throughput

0.536

High

1449503

ATG3
Ubiquitin-like-conjugating enzyme ATG3

1

1

High-throughput

0.536

High

188070

EIF3H
Eukaryotic translation initiation factor 3 subunit H

1

0

High-throughput

0.513

High

193156

DDX3Y
ATP-dependent RNA helicase DDX3Y

1

0

High-throughput

0.513

High

295375

EIF3J
Eukaryotic translation initiation factor 3 subunit J

1

0

High-throughput

0.513

High

317697

ATG12
Ubiquitin-like protein ATG12

1

0

High-throughput

0.513

High

359772

DHE3
Glutamate dehydrogenase 1, mitochondrial

1

0

High-throughput

0.513

High

429079

RLA0
Large ribosomal subunit protein uL10

1

0

High-throughput

0.513

High

445624

IF4E
Eukaryotic translation initiation factor 4E

1

0

High-throughput

0.513

High

542707

TOP2A
DNA topoisomerase 2-alpha

1

0

High-throughput

0.513

High

616071

RL17
Large ribosomal subunit protein uL22

1

0

High-throughput

0.513

High

658491

RS3
Small ribosomal subunit protein uS3

1

0

High-throughput

0.513

High

673988

RS12
Small ribosomal subunit protein eS12

1

0

High-throughput

0.513

High

694094

RL10
Large ribosomal subunit protein uL16

1

0

High-throughput

0.513

High

749173

RL9
Large ribosomal subunit protein uL6

1

0

High-throughput

0.513

High

770340

RL22
Large ribosomal subunit protein eL22

1

0

High-throughput

0.513

High

809938

RS19
Small ribosomal subunit protein eS19

1

0

High-throughput

0.513

High

810485

RL3
Large ribosomal subunit protein uL3

1

0

High-throughput

0.513

High

824444

RL13A
Large ribosomal subunit protein uL13

1

0

High-throughput

0.513

High

833803

KDM5C
Lysine-specific demethylase 5C

1

0

High-throughput

0.513

High

860069

RL28
Large ribosomal subunit protein eL28

1

0

High-throughput

0.513

High

860433

RS9
Small ribosomal subunit protein uS4

1

0

High-throughput

0.513

High

860652

RS5
Small ribosomal subunit protein uS7

1

0

High-throughput

0.513

High

880411

RL34
Large ribosomal subunit protein eL34

1

0

High-throughput

0.513

High

939472

EIF3B
Eukaryotic translation initiation factor 3 subunit B

1

0

High-throughput

0.513

High

954039

IF4A1
Eukaryotic initiation factor 4A-I

1

0

High-throughput

0.513

High

956207

SRP54
Signal recognition particle subunit SRP54

1

0

High-throughput

0.513

High

961450

RL27
Large ribosomal subunit protein eL27

1

0

High-throughput

0.513

High

967619

RS7
Small ribosomal subunit protein eS7

1

0

High-throughput

0.513

High

969538

RS8
Small ribosomal subunit protein eS8

1

0

High-throughput

0.513

High

969737

RS15A
Small ribosomal subunit protein uS8

1

0

High-throughput

0.513

High

970196

RS16
Small ribosomal subunit protein uS9

1

0

High-throughput

0.513

High

973362

RS13
Small ribosomal subunit protein uS15

1

0

High-throughput

0.513

High

977429

RS4X
Small ribosomal subunit protein eS4, X isoform

1

0

High-throughput

0.513

High

982023

RL23
Large ribosomal subunit protein uL14

1

0

High-throughput

0.513

High

982596

RS15
Small ribosomal subunit protein uS19

1

0

High-throughput

0.513

High

983097

RS25
Small ribosomal subunit protein eS25

1

0

High-throughput

0.513

High

983236

RS26
Small ribosomal subunit protein eS26

1

0

High-throughput

0.513

High

984601

RL30
Large ribosomal subunit protein eL30

1

0

High-throughput

0.513

High

985094

RL31
Large ribosomal subunit protein eL31

1

0

High-throughput

0.513

High

985589

RL32
Large ribosomal subunit protein eL32

1

0

High-throughput

0.513

High

985972

RL11
Large ribosomal subunit protein uL5

1

0

High-throughput

0.513

High

992119

RL38
Large ribosomal subunit protein eL38

1

0

High-throughput

0.513

High

1013905

RL24
Large ribosomal subunit protein eL24

1

0

High-throughput

0.513

High

1016314

RL19
Large ribosomal subunit protein eL19

1

0

High-throughput

0.513

High

1062735

DHX9
ATP-dependent RNA helicase A

1

0

High-throughput

0.513

High

1089372

AIMP1
Aminoacyl tRNA synthase complex-interacting multifunctional protein 1

1

0

High-throughput

0.513

High

1097768

STK3
Serine/threonine-protein kinase 3

1

0

High-throughput

0.513

High

1121930

EIF3A
Eukaryotic translation initiation factor 3 subunit A

1

0

High-throughput

0.513

High

1130551

RRP1B
Ribosomal RNA processing protein 1 homolog B

1

0

High-throughput

0.513

High

1131163

UBP10
Ubiquitin carboxyl-terminal hydrolase 10

1

0

High-throughput

0.513

High

1136629

PSMD6
26S proteasome non-ATPase regulatory subunit 6

1

0

High-throughput

0.513

High

1137290

CND1
Condensin complex subunit 1

1

0

High-throughput

0.513

High

1277977

NUFP2
FMR1-interacting protein NUFIP2

1

0

High-throughput

0.513

High

1288832

KTN1
Kinectin

1

0

High-throughput

0.513

High

1368316

STAM1
Signal transducing adapter molecule 1

1

0

High-throughput

0.513

High

1386502

CC124
Coiled-coil domain-containing protein 124

1

0

High-throughput

0.513

High

1401838

KKCC2
Calcium/calmodulin-dependent protein kinase kinase 2

1

0

High-throughput

0.513

High

1410898

MGME1
Mitochondrial genome maintenance exonuclease 1

1

0

High-throughput

0.513

High

1420913

AMRA1
Activating molecule in BECN1-regulated autophagy protein 1

1

0

High-throughput

0.513

High

1446499

DCP1A
mRNA-decapping enzyme 1A

1

0

High-throughput

0.513

High

1449768

ZCHC3
Zinc finger CCHC domain-containing protein 3

1

0

High-throughput

0.513

High

1452624

COA4
Cytochrome c oxidase assembly factor 4 homolog, mitochondrial

1

0

High-throughput

0.513

High

1458628

EIF3K
Eukaryotic translation initiation factor 3 subunit K

1

0

High-throughput

0.513

High

1491444

PRC2C
Protein PRRC2C

1

0

High-throughput

0.513

High

243393

PRKN
E3 ubiquitin-protein ligase parkin

1

2

High-throughput

0.479

High

960044

RS3A
Small ribosomal subunit protein eS1

1

1

High-throughput

0.479

High

1039473

RL6
Large ribosomal subunit protein eL6

1

1

High-throughput

0.479

High

1256252

TRI67
Tripartite motif-containing protein 67

1

1

High-throughput

0.479

High

1383221

RAB7B
Ras-related protein Rab-7b

1

1

Small-scale

0.479

High

1461022

FBW1B
F-box/WD repeat-containing protein 11

1

1

High-throughput

0.479

High

186142

OGT1
UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit

1

0

Small-scale

0.458

High

348010

BAG3
BAG family molecular chaperone regulator 3

1

0

High-throughput

0.458

High

373606

MYC
Myc proto-oncogene protein

1

0

High-throughput

0.458

High

403050

ANXA1
Annexin A1

1

0

High-throughput

0.458

High

675213

TNR6
Tumor necrosis factor receptor superfamily member 6

1

0

High-throughput

0.458

High

831707

CCNF
Cyclin-F

1

0

High-throughput

0.458

High

1108318

SQSTM
Sequestosome-1

1

0

Small-scale

0.458

High

1335106

SERB1
SERPINE1 mRNA-binding protein 1

1

0

High-throughput

0.458

High

1364318

TOPB1
DNA topoisomerase 2-binding protein 1

1

0

High-throughput

0.458

High

1368698

KAT6A
Histone acetyltransferase KAT6A

1

0

Small-scale

0.458

High

1434330

PKHA4
Pleckstrin homology domain-containing family A member 4

1

0

High-throughput

0.458

High

1453064

TLS1
Splicing factor C9orf78

1

0

High-throughput

0.458

High

1459443

ZRAN1
Ubiquitin thioesterase ZRANB1

1

0

High-throughput

0.458

High

1459536

TES
Testin

1

0

High-throughput

0.458

High

94445

D6RAT0
Small ribosomal subunit protein eS1

1

1

High-throughput

0.445

High

404970

PRIO
Major prion protein

1

0

High-throughput

0.426

High

618167

K2C4
Keratin, type II cytoskeletal 4

1

0

High-throughput

0.426

High

107282

F8VR69
Ribosomal protein L6

1

1

High-throughput

0.407

High

569153

T2FB
General transcription factor IIF subunit 2

1

0

High-throughput

0.279

Low

608392

EGLN
Endoglin

1

0

High-throughput

0.279

Low

770439

T2FA
General transcription factor IIF subunit 1

1

0

High-throughput

0.279

Low

1363660

H1X
Histone H1.10

1

0

High-throughput

0.279

Low

1461319

NUP50
Nuclear pore complex protein Nup50

1

0

High-throughput

0.279

Low

106920

APRIO
Alternative prion protein

1

0

High-throughput

0.249

Low

590126

RFA2
Replication protein A 32 kDa subunit

1

0

High-throughput

0.249

Low

696965

RFA1
Replication protein A 70 kDa DNA-binding subunit

1

0

High-throughput

0.249

Low

1413008

CNPY3
Protein canopy homolog 3

1

0

Small-scale

0.249

Low

1219480

SLX4I
Protein SLX4IP

1

0

High-throughput

0.232

Low

1410244

SLX1
Structure-specific endonuclease subunit SLX1

1

0

High-throughput

0.232

Low


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Last updated: 11Aug2025