PDBsum entry 8q1b

Membrane protein

PDB id: 8q1b

Contents

Protein chains

443 a.a.

406 a.a.

387 a.a.

245 a.a.

182 a.a.

66 a.a.

122 a.a.

87 a.a.

60 a.a.

77 a.a.

537 a.a.

238 a.a.

268 a.a.

121 a.a.

145 a.a.

100 a.a.

57 a.a.

45 a.a.

55 a.a.

75 a.a.

88 a.a.

69 a.a.

26 a.a.

Ligands

CDL ×6

PCF ×4

PEF ×10

HEM ×4

U10 ×2

HEC ×2

FES ×2

HEA ×2

CUA

Metals

_ZN ×3

_CU

_CA

_MG

PDB id:

8q1b

Name:

Membrane protein

Title:

Iii2-iv1 respiratory supercomplex from s. Pombe

Structure:

Probable mitochondrial-processing peptidase subunit beta. Chain: a, l. Cytochrome b-c1 complex subunit 2, mitochondrial. Chain: b, m. Cytochrome b. Chain: c, n. Cytochrome c1, heme protein, mitochondrial. Chain: d, o. Cytochrome b-c1 complex subunit rieske, mitochondrial.

Source:

Schizosaccharomyces pombe. Fission yeast. Organism_taxid: 4896. Gene: cox5, spcc338.10c. Expressed in: schizosaccharomyces pombe. Expression_system_taxid: 4896. Organism_taxid: 4896

Authors:

A.Moe,P.Brzezinski

Key ref:

A.Moe et al. (2023). Structure and function of the s. Pombe III-Iv-Cyt c supercomplex.. Proc natl acad sci usa, 120, 97120. PubMed id: 37939086

Date:

31-Jul-23 Release date: 15-Nov-23

Protein chains

Q9P7X1  (MPPB_SCHPO) -  Probable mitochondrial-processing peptidase subunit beta from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 457 a.a.

Struc: 443 a.a.

Protein chains

P78761  (QCR2_SCHPO) -  Cytochrome b-c1 complex subunit 2, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 426 a.a.

Struc: 406 a.a.

Protein chains

P05501  (CYB_SCHPO) -  Cytochrome b from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 387 a.a.

Struc: 387 a.a.

Protein chains

O59680  (CY1_SCHPO) -  Cytochrome c1, heme protein, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 307 a.a.

Struc: 245 a.a.

Protein chains

Q09154  (UCRI_SCHPO) -  Cytochrome b-c1 complex subunit Rieske, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 228 a.a.

Struc: 182 a.a.

Protein chains

O42932  (QCR6_SCHPO) -  Cytochrome b-c1 complex subunit 6 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 214 a.a.

Struc: 66 a.a.

Protein chains

O74533  (QCR7_SCHPO) -  Cytochrome b-c1 complex subunit 7 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 137 a.a.

Struc: 122 a.a.

Protein chains

P50523  (QCR8_SCHPO) -  Cytochrome b-c1 complex subunit 8 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 92 a.a.

Struc: 87 a.a.

Protein chains

O74433  (QCR9_SCHPO) -  Cytochrome b-c1 complex subunit 9 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 67 a.a.

Struc: 60 a.a.

Protein chains

Q9P7E0  (QCR10_SCHPO) -  Cytochrome b-c1 complex subunit 10 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 79 a.a.

Struc: 77 a.a.

Protein chain

P07657  (COX1_SCHPO) -  Cytochrome c oxidase subunit 1 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 537 a.a.

Struc: 537 a.a.*

Protein chain

P21534  (COX2_SCHPO) -  Cytochrome c oxidase subunit 2 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 248 a.a.

Struc: 238 a.a.

Protein chain

P14575  (COX3_SCHPO) -  Cytochrome c oxidase subunit 3 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 269 a.a.

Struc: 268 a.a.

Protein chain

P79010  (COX4_SCHPO) -  Cytochrome c oxidase subunit 4, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 164 a.a.

Struc: 121 a.a.

Protein chain

O74988  (COX5_SCHPO) -  Cytochrome c oxidase polypeptide 5, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 186 a.a.

Struc: 145 a.a.

Protein chain

Q9UTF6  (COX6_SCHPO) -  Cytochrome c oxidase subunit 6, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 140 a.a.

Struc: 100 a.a.

Protein chain

G2TRP5  (COX7_SCHPO) -  Cytochrome c oxidase subunit 7 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 59 a.a.

Struc: 57 a.a.

Protein chain

Q9P4W1  (COX8_SCHPO) -  Cytochrome c oxidase polypeptide VIII, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 66 a.a.

Struc: 45 a.a.

Protein chain

O94705  (COX9_SCHPO) -  Cytochrome c oxidase subunit 9, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 58 a.a.

Struc: 55 a.a.

Protein chain

O94581  (COX12_SCHPO) -  Cytochrome c oxidase subunit 12, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 86 a.a.

Struc: 75 a.a.

Protein chain

O74471  (COX13_SCHPO) -  Cytochrome c oxidase subunit 13, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 130 a.a.

Struc: 88 a.a.

Protein chain

Q9P3B2  (RCF2_SCHPO) -  Respiratory supercomplex factor 2 homolog C1565.01 from Schizosaccharomyces pombe (strain 972 / ATCC 24843)

Seq: 242 a.a.

Struc: 69 a.a.

Protein chain

No UniProt id for this chain

Struc: 26 a.a.

* PDB and UniProt seqs differ at 1 residue position (black cross)

Enzyme reactions

• Enzyme class 2: Chains A, L: E.C.3.4.24.64 - mitochondrial processing peptidase.
• Reaction: Release of N-terminal transit peptides from precursor proteins imported into the mitochondrion, typically with Arg in position P2.
• Cofactor: Zn(2+)
• Enzyme class 3: Chains D, E, O, P: E.C.7.1.1.8 - quinol--cytochrome-c reductase.
• Reaction: a quinol + 2 Fe(III)-[cytochrome c](out) = a quinone + 2 Fe(II)- [cytochrome c](out) + 2 H(+)(out)
• Enzyme class 4: Chains a, b, c: E.C.7.1.1.9 - cytochrome-c oxidase.
• Reaction: 4 Fe(II)-[cytochrome c] + O2 + 8 H⁺(in) = 4 Fe(III)-[cytochrome c] + 2 H2O + 4 H⁺(out)
• Cofactor: Cu cation

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site