Reagent or resource	Source	Identifier
Antibodies
Rabbit monoclonal anti‐cleaved caspase‐3	Cell Siganaling Technology	Cat#9664S
Mouse monoclonal anti‐GAPDH	ThermoFisher Scientific	Cat#AM4300, RRID: AB_2536381
Rabbit polyclonal anti‐HA	Sigma‐Aldrich	Cat#H6908, RRID: AB_260070
Mouse monoclonal anti‐HA	Covance Research Products Inc	Cat#NMS‐101R, RIDD: N/A
Rabbit monoclonal anti‐HA	Cell Signaling Technology	Cat#3724, RRID: AB_1549585
Rabbit polyclonal anti‐HOIP (RNF31)	Bethyl	Cat#A303‐560A, RRID: AB_10949139
Rabbit monoclonal anti‐M1‐ubiquitin (clone 1E3)	Millipore	Cat#MABS199, RRID: AB_2576212
Mouse monoclonal anti‐NEMO	Santa Cruz Biotechnology	Cat#sc‐8032, RRID: AB_627786
Rabbit polyclonal anti‐OTULIN	Cell Signaling Technology	Cat#14127, RRID: AB_2576213
Rabbit polyclonal anti‐IKKβ	Cell Signaling Technology	Cat#2370, RRID: AB_2122154
Human polyclonal anti‐M1‐ubiquitin (clone 1F11/3F5/Y102L)	Genentech	1F11/3F5/Y102L
Mouse monoclonal anti‐TNFR1	Santa Cruz	Cat#sc‐8436, RRID:AB_628377
Mouse monoclonal anti‐TIM23	BD Science	Cat#611222, RRID:AB_398755
Rabbit monoclonal anti‐K63‐ubiquitin	Millipore	Cat#05‐1308, RRID:AB_1587580
Rabbit monoclonal anti‐K48‐ubiquitin	Cell Signaling Technology	Cat#8081, RRID:AB_10859893
Rabbit polyclonal anti‐HOIL‐1L (RBCK)	Invitrogen	Cat#PA5‐11949, RRID: AB_2175271
Rabbit monoclonal anti‐SHARPIN	Cell signaling Technology	Cat#12541, RRID: AB_2797949
Mouse monoclonal anti‐Actin	Sigma‐Aldrich	Cat#A5316, RRID:AB_476743
Goat polyclonal anti‐HSP60	Santa Cruz	Cat#sc‐1052, RRID:AB_631683
Rabbit polyclonal anti‐VDAC	Cell Signaling Technology	Cat#4866, RRID:AB_2272627
Rabbit monoclonal anti‐PINK1	Cell Signaling Technology	Cat#6946, RRID:AB_11179069
Mouse polyclonal anti‐PINK1	Santa Cruz	Cat#sc‐517353 RRID: N/A
Mouse monoclonal anti‐V5	Invitrogen	Cat# R960‐25, RRID:AB_2556564
Mouse monoclonal anti‐ubiquitin	Santa Cruz	Cat# sc‐8017, RRID:AB_628423
Rabbit anti‐p‐S65‐ubiquitin	Fiesel et al (2015)	N/A
Rabbit polyclonal anti‐Bax	Cell Signaling Technology	Cat#2772, RRID:AB_10695870
Rabbit monoclonal anti‐cytochrome c	Cell Signaling Technology	Cat# 4280, RRID:AB_10695410
Rabbit monoclonal anti‐NF‐κB p65	Cell Signaling Technology	Cat# 8242, RRID:AB_10859369
Rabbit monoclonal anti‐phospho‐NF‐κB p65 (S536)	Cell Signaling Technology	Cat# 3033, RRID:AB_331284
Rabbit polyclonal anti‐IKBKG (NEMO)	Sigma‐Aldrich	Cat# HPA000426, RRID:AB_1851572
Rabbit polyclonal anti‐Optineurin (OPTN)	Sigma‐Aldrich	Cat# HPA003279, RRID:AB_1079527
Rabbit polyclonal anti‐Miro2	Proteintech	Cat# 11237‐1‐AP RRID: AB_2179539
Rabbit monoclonal anti‐phospho TBK1/NAK (Ser172)	Cell Signaling Technology	Cat# 5483, RRID: AB_2798527
Mouse monoclonal anti‐TOM20	Santa Cruz	Cat# sc‐17764, RRID: AB_628381
Rabbit polyclonal anti‐TOM70	Proteintech	Cat# 14528‐1‐AP, RRID: AB_2303727
Rabbit monoclonal anti‐phospho‐NF‐κB p65 (Ser536)	ThermoFisher	Cat# MA5‐15160 RRID: AB_10983078
Rabbit anti‐p‐S65‐Parkin	Kane et al (2014)
Strep‐Tactin® HRP conjugate	IBA Lifesciences	Cat# 2‐1502‐001
Biological samples
Human peripheral blood mononuclear cells	DRK‐Blutspendedienst Baden‐Württemberg—Hessen, Institut für Transfusionsmedizin und Immunhämatologie, Frankfurt, Germany	https://www.blutspende.de
Human serum	DRK‐Blutspendedienst Baden‐Württemberg—Hessen	https://www.blutspende.de
Chemical, peptides, and recombinant proteins
Human TNF	Peprotech	Cat# 300‐01A
Murine TNF	Peprotech	Cat# 315‐01A
Staurosporine	Enzo life science	Cat# ALX 380‐014M001
Carbonyl cyanide 3‐chlorophenylhydrazone	Sigma‐Aldrich	Cat# C2759
Antimycin A	Sigma‐Aldrich	Cat# A8674
Oligomycin	Sigma‐Aldrich	Cat# O4876
Tetra‐ubiquitin (linear)	Enzo Life Sciences	Cat# BML‐UW0785‐0100
Recombinant human ubiquitin	Biotechne	Cat# U‐100H‐10M
Cell lines
SH‐SY5Y	Leibniz‐Institut DSMZ‐Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH https://www.dsmz.de/home.html	DSMZ no.: ACC 209
HEK293T	ATCC https://www.lgcstandards‐atcc.org/	ATCC® CRL‐1573™
HAP1 WT and HAP1 HOIP (RNF31) KO	Horizon	https://www.horizondiscovery.com
HeLa	Leibniz‐Institut DSMZ‐Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH https://www.dsmz.de/home.html	DSMZ no.: ACC 57
Oligonucleotides
OTULIN siRNA human: GGAAGAAUGAGGACCUGGUUGAUAA GCGGAGGAAUAUAGCCUCUAUGAAG UCUCCAAGUACAACACGGAAGAAUU	Invitrogen	HSS131920 HSS131921 HSS131922
HOIP siRNA human: GGUACUGGCGUGGUGUCAAGUUUAA, GAGAUGUGCUGCGAUUAUAUGGCUA, CACCACCCUCGAGACUGCCUCUUCU	Invitrogen	HSS123836 HSS123837 HSS182838
PINK1 siRNA human: GGACGCUGUUCCUCGUUAUGAAGAA GGAGUAUCUGAUAGGGCAGUCCAUU GAGUAGCCGCAAAUGUGCUUCAUCU	Invitrogen	HSS127945 HSS127946 HSS185707
RHOT1 siRNA human	GE Dharmacon	Cat# L‐010365‐01‐0005, smartpool
RHOT2 siRNA human	GE Dharmacon	Cat# L‐008340‐01‐0005, smartpool
PINK1‐V5_K219A forward: 5′‐ CCCTTGGCCATCGCGATGATGTGGAACATCTCG‐3’	This paper	N/A
PINK1‐V5_K219A reverse: 5′‐ CGDGATGTTCCACATCATCGCGATGGCCAAGGG‐3’	This paper	N/A
PINK1‐V5 D362A forward: 5′‐ GGCATCGCGCACAGAGCCCTGAAATCCGAC‐3’	This paper	N/A
PINK1‐V5 D362A reverse: 5′‐ GTCGGATTTCAGGGCTCTGTGCGCGATGCC‐3’	This paper	N/A
PINK1‐V5 D384A forward: 5′‐ CTGGTGATCGCAGCTTTTGGCTGCTGCTG‐3’	This paper	N/A
PINK1‐V5 D384A reverse: 5′‐ CAGGCAGCAGCCAAAAGCTGCGATCACCG‐3′	This paper	N/A
actin_forward: 5′‐ CCTGCCACCCAGCACAAT‐3’	This paper	N/A
actin_reverse: 5′‐ GGGCCGGACTCGTCATAC‐3’	This paper	N/A
PINK1 human forward: 5′‐ GTGGAACATCTCGGCAGGT‐3’	This paper	N/A
PINK1 human reverse: 5′‐ TTGCTTGGGACCTCTCTTGG‐3’	This paper	N/A
Itprip HindIII‐FF: 5’‐TTTAGTAAGCTTATGGCCATGGGGCTCTTCCGC‐3‘	This paper	N/A
RV Itprip XbaI Rev: 5’‐AGTGCTTCTAGAGCTTTTTGGGGTAGGCTGGTC‐3	This paper	N/A
Recombinant DNA
pET47b HOIP‐RBR‐LDD (C‐terminal HOIP)	Stieglitz et al (2012)	N/A
pGEXP 6P1 tcPINK1 WT (a.a. 121–570)	Rasool et al (2018)	N/A
pET28a LIC UBE2L3	Stieglitz et al (2012)	N/A
pcDNA6A PINK1‐V5	Exner et al (2007)	N/A
pcDNA6A PINK1‐V5 kinase dead (K219A, D362A, D384A)	This paper	N/A
pcDNA6A PINK1 Δ77	This paper	N/A
pcDNA3.1 HA‐HOIP	Muller‐Rischart et al (2013)	N/A
pcDNA3.1 HA‐ (697–1,072) HOIP	Meschede et al (2020)	N/A
pcDNA3.1 HA‐ (1–697) HOIP	Meschede et al (2020)	N/A
pcDNA3.1 HA‐ (1–475) HOIP	Meschede et al (2020)	N/A
pcDNA3.1 HA‐ (1–408) HOIP	Meschede et al (2020)	N/A
pcDNA3.1 HA‐ (1–349) HOIP	Meschede et al (2020)	N/A
pcDNA3.1 HA‐ (1–298) HOIP	Meschede et al (2020)	N/A
pcDNA3.1 OTULIN WT	Stangl et al (2019)	N/A
pcDNA3.1 OTULIN W96A	Stangl et al (2019)	N/A
NF‐κB luciferase	Krappmann et al (2001)	N/A
pcDNA3.1 HA‐NEMO	This paper	N/A
pASK IBA 3+ Strep‐OTULIN	This paper	N/A
pET28b His‐mouseUBE1	Addgene	#32534
OMM‐GFP1‐10, GFP1‐10, RFP‐b11	Cieri et al (2018), Vallese et al (2020)	N/A
pcDNA3 ONM‐β11	This paper	N/A
Critical commercial assays
Duolink® In Situ PLA® Probe Anti‐Rabbit PLUS	Sigma‐Aldrich	#DUO92002
Duolink® In Situ PLA® Probe Anti‐Mouse MINUS	Sigma‐Aldrich	#DUO92004
Duolink® In Situ Detection Reagents Green	Sigma‐Aldrich	#DUO92014
Duolink® In Situ Mounting Medium with DAPI	Sigma‐Aldrich	#DUO82040
Seahorse XF Cell Mito Stress Kit	Agilent	#103015‐100
Seahorse XF Real‐Time ATP Rate Assay Kit	Agilent	#1035292‐100