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Table 1 Twin-CXnC motif-containing proteins identified in CHCHD4 (shRNA) knockdown cells and CHCHD4 (WT)-expressing cells using SILAC analysis

From: CHCHD4 confers metabolic vulnerabilities to tumour cells through its control of the mitochondrial respiratory chain

Protein

Accession (HGNC)

CXC motifs

Function

Mean fold change

CH shRNA/shRNACtrl

WT.cl1/control

Coiled-coil-helix-coiled-coil-helix domain-containing 4; CHCHD4

26467

CX9C, CX9C [3]

Mitochondrial import [53]

0.62 (****)

4.48 (*)

Coiled-coil-helix-coiled-coil-helix domain-containing 1; CHCHD1

23518

CX9C, CX9C [38]

Mitochondrial ribosome [38]

0.86 (***)

1.03

Coiled-coil-helix-coiled-coil-helix domain-containing 2; CHCHD2§

21645

CX9C, CX9C [54]

CIV activity/assembly [8, 54]

n.d.

0.63

Coiled-coil-helix-coiled-coil-helix domain-containing 4; CHCHD6§

28184

CX9C, CX9C [55]

Cristae morphology [56]

0.86

1.06

NADH:ubiquinone oxidoreductase subunit A8; NDUFA8§

7692

CX9C, CX9C [40]

CI activity/assembly [8]

0.79 (****)

1.17

NADH:ubiquinone oxidoreductase subunit B7; NDUFB7§

7702

CX9C, CX9C [40]

CI activity/assembly [8]

0.82 (**)

1.12 (*)

NADH:ubiquinone oxidoreductase subunit B10; NDUFB10§

7696

CX6C, CX11C [57]

CI activity/assembly [8, 57]

0.86 (**)

1.13

NADH:ubiquinone oxidoreductase subunit S5; NDUFS5§

7712

CX9C, CX9C [40]

CI activity/assembly [8]

0.81 (***)

1.11

Ubiquinol-cytochrome c reductase hinge protein; UQCRH

12590

CX10C, CX9C [58]

CIII assembly/activity [59]

0.96

1.05

C-X9-C motif-containing 1; CMC1

28783

CX9C, CX9C [60]

CIV assembly/activity [61]

0.68 (****)

1.10

Cytochrome c oxidase assembly factor 6; COA6§

18025

CX9C, CX10C [62]

CIV assembly/activity [63]

0.70 (****)

2.00 (*)

Cytochrome c oxidase subunit 6B1; COX6B1

2280

CX9C, CX10C [64]

CIV assembly/activity [8, 64]

0.81 (**)

1.43 (**)

Cytochrome c oxidase copper chaperone; COX17

2264

CX9C, CX9C [53]

CIV assembly/activity [65]

n.d.

2.34 (*)

Translocase of inner mitochondrial membrane 8 homologue A; TIMM8A§

11817

CX3C, CX3C [66]

Matrix protein import [8, 67]

0.71 (*)

1.30 (*)

Translocase of inner mitochondrial membrane 8 homologue B; TIMM8B§

11818

CX3C, CX3C [66]

Matrix protein import [67]

0.76 (*)

n.d.

Translocase of inner mitochondrial membrane 9; TIMM9

11819

CX3C, CX3C [66]

Matrix protein import [67]

0.80 (***)

1.40 (***)

Translocase of inner mitochondrial membrane 10; TIMM10§

11814

CX3C, CX3C [66]

Matrix protein import [8, 67]

n.d.

1.07

Translocase of inner mitochondrial membrane 10B; TIMM10B§

4022

CX3C, CX3C [66]

Matrix protein import [67]

0.81 (*)

1.08

Translocase of inner mitochondrial membrane 13; TIMM13§

11816

CX3C, CX3C [66]

Matrix protein import [8, 67]

0.77 (*)

1.47 (*)

  1. Table shows selected proteins, their respective twin-CXnC motif and the fold change in their mitochondrial availability in CHCHD4 (shRNA) knockdown cells compared to control shRNA cells and CHCHD4 (WT)-expressing compared to control cells. Known CHCHD4-binding proteins are indicated (§). Representative mean fold changes in proteins observed in response to CHCHD4 knockdown were calculated from two parallel labelling analyses (CHCHD4 shRNA(H) vs shRNA Ctrl(L) and CHCHD4 shRNA(L) vs shRNA Ctrl(H)) from two independent SILAC experiments. Representative mean fold changes in proteins observed in response to elevated CHCHD4 expression were calculated from two parallel labelling analyses (WT(H) vs Ctrl(L) and WT(L) vs Ctrl(H)) from three independent SILAC experiments for all proteins shown, except CHCHD2 and TIMM8A where data was from two independent SILAC experiments.
  2. Proteins significantly changed are indicated *p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001. Proteins not detected or showing no reproducible change between experiments are indicated (n.d.)
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Cancer & Metabolism

ISSN: 2049-3002