8B6H

Cryo-EM structure of cytochrome c oxidase dimer (complex IV) from respiratory supercomplex of Tetrahymena thermophila


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
R [auth DS]PF00153e8b6hDS1 A: alpha complex topologyX: Mitochondrial ADP/ATP carrier-likeH: Mitochondrial ADP/ATP carrier (From Topology)T: Mitochondrial ADP/ATP carrierF: PF00153ECOD (1.6)
RB [auth Ds]PF00153e8b6hDs1 A: alpha complex topologyX: Mitochondrial ADP/ATP carrier-likeH: Mitochondrial ADP/ATP carrier (From Topology)T: Mitochondrial ADP/ATP carrierF: PF00153ECOD (1.6)
U [auth DV]PF00153e8b6hDV1 A: alpha complex topologyX: Mitochondrial ADP/ATP carrier-likeH: Mitochondrial ADP/ATP carrier (From Topology)T: Mitochondrial ADP/ATP carrierF: PF00153ECOD (1.6)
UB [auth Dv]PF00153e8b6hDv1 A: alpha complex topologyX: Mitochondrial ADP/ATP carrier-likeH: Mitochondrial ADP/ATP carrier (From Topology)T: Mitochondrial ADP/ATP carrierF: PF00153ECOD (1.6)
OA [auth EP]F_UNCLASSIFIEDe8b6hEP1 A: alpha bundlesX: ACP-likeH: Acyl-carrier protein (ACP) (From Topology)T: Acyl-carrier protein (ACP)F: F_UNCLASSIFIEDECOD (1.6)
OC [auth Ep]F_UNCLASSIFIEDe8b6hEp1 A: alpha bundlesX: ACP-likeH: Acyl-carrier protein (ACP) (From Topology)T: Acyl-carrier protein (ACP)F: F_UNCLASSIFIEDECOD (1.6)
SA [auth ET]F_UNCLASSIFIEDe8b6hET1 A: few secondary structure elementsX: Tim10/DDP (From Topology)H: Tim10/DDP (From Topology)T: Tim10/DDPF: F_UNCLASSIFIEDECOD (1.6)
SC [auth Et]F_UNCLASSIFIEDe8b6hEt1 A: few secondary structure elementsX: Tim10/DDP (From Topology)H: Tim10/DDP (From Topology)T: Tim10/DDPF: F_UNCLASSIFIEDECOD (1.6)
WA [auth EX]F_UNCLASSIFIEDe8b6hEX1 A: few secondary structure elementsX: Tim10/DDP (From Topology)H: Tim10/DDP (From Topology)T: Tim10/DDPF: F_UNCLASSIFIEDECOD (1.6)
WC [auth Ex]F_UNCLASSIFIEDe8b6hEx1 A: few secondary structure elementsX: Tim10/DDP (From Topology)H: Tim10/DDP (From Topology)T: Tim10/DDPF: F_UNCLASSIFIEDECOD (1.6)
XA [auth EY]F_UNCLASSIFIEDe8b6hEY1 A: few secondary structure elementsX: Tim10/DDP (From Topology)H: Tim10/DDP (From Topology)T: Tim10/DDPF: F_UNCLASSIFIEDECOD (1.6)
XC [auth Ey]F_UNCLASSIFIEDe8b6hEy1 A: few secondary structure elementsX: Tim10/DDP (From Topology)H: Tim10/DDP (From Topology)T: Tim10/DDPF: F_UNCLASSIFIEDECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth DA],
AB [auth Da]
PF00115Cytochrome C and Quinol oxidase polypeptide I (COX1)Cytochrome C and Quinol oxidase polypeptide I- Family
O [auth DP],
OB [auth Dp]
PF02104SURF1 family (SURF1)SURF1 family- Family
R [auth DS],
RB [auth Ds]
PF00153Mitochondrial carrier protein (Mito_carr)Mitochondrial carrier protein- Repeat
B [auth DB],
BB [auth Db]
PF00116Cytochrome C oxidase subunit II, periplasmic domain (COX2)Cytochrome C oxidase subunit II, periplasmic domain- Domain
T [auth DU],
TB [auth Du]
PF00153Mitochondrial carrier protein (Mito_carr)Mitochondrial carrier protein- Repeat
U [auth DV],
UB [auth Dv]
PF00153Mitochondrial carrier protein (Mito_carr)Mitochondrial carrier protein- Repeat
V [auth DW],
VB [auth Dw]
PF02104SURF1 family (SURF1)SURF1 family- Family
D [auth DD],
DB [auth Dd]
PF01215Cytochrome c oxidase subunit Vb (COX5B)Cytochrome c oxidase subunit Vb- Domain
ZA [auth FA],
ZC [auth Fa]
PF02953Tim10/DDP family zinc finger (zf-Tim10_DDP)Tim10/DDP family zinc fingerPutative zinc binding domain with four conserved cysteine residues. This domain is found in the human disease protein Swiss:O60220. Members of this family such as Tim9 and Tim10 are involved in mitochondrial protein import [1]. Members of thi ...Putative zinc binding domain with four conserved cysteine residues. This domain is found in the human disease protein Swiss:O60220. Members of this family such as Tim9 and Tim10 are involved in mitochondrial protein import [1]. Members of this family seem to be localised to the mitochondrial intermembrane space [2].
Domain
AD [auth Dl],
BD [auth DL]
PF00415Regulator of chromosome condensation (RCC1) repeat (RCC1)Regulator of chromosome condensation (RCC1) repeat- Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth DA],
AB [auth Da]
Cytochrome c oxidase subunit 1
J [auth DJ],
JB [auth Dj]
Transmembrane protein, putative- -
K [auth DK],
KB [auth Dk]
CTF/NF-I domain-containing protein -
L [auth DM],
LB [auth Dm]
Transmembrane protein, putative- -
M [auth DN],
MB [auth Dn]
Ymf67- -
N [auth DO],
NB [auth Do]
Protein phosphatase 2C, putative- - -
O [auth DP],
OB [auth Dp]
SURF1-like protein-
P [auth DQ],
PB [auth Dq]
TraB family protein- - -
Q [auth DR],
QB [auth Dr]
Transmembrane protein, putative- -
R [auth DS],
RB [auth Ds]
Oxoglutarate/malate translocator protein, putative -
S [auth DT],
SB [auth Dt]
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8, mitochondrial- - -
B [auth DB],
BB [auth Db]
Cytochrome c oxidase subunit 2
T [auth DU],
TB [auth Du]
Carrier protein- -
U [auth DV],
UB [auth Dv]
2-oxoglutarate/malate carrier protein
V [auth DW],
VB [auth Dw]
SURF1-like protein-
W [auth DX],
WB [auth Dx]
COXTT9- - -
X [auth DY],
XB [auth Dy]
COXTT10- - -
Y [auth DZ],
YB [auth Dz]
39S ribosomal protein L9, mitochondrial- - -
Z [auth EA],
ZB [auth Ea]
COXTT12,Transmembrane protein,Transmembrane protein- - -
AA [auth EB],
AC [auth Eb]
Transmembrane protein, putative- -
BA [auth EC],
BC [auth Ec]
COXTT27---
CA [auth ED],
CC [auth Ed]
Ymf75- -
C [auth DC],
CB [auth Dc]
Ymf68- -
DA [auth EE],
DC [auth Ee]
Mobilization protein- - -
EA [auth EF],
EC [auth Ef]
Iron-binding zinc finger CDGSH type protein
FA [auth EG],
FC [auth Eg]
COXTT28---
GA [auth EH],
GC [auth Eh]
Transmembrane protein, putative- -
HA [auth EI],
HC [auth Ei]
Transmembrane protein- - -
IA [auth EV],
IC [auth Ev]
Decapping nuclease- - -
JA [auth EK],
JC [auth Ek]
Complex III subunit VII- - -
KA [auth EL],
KC [auth El]
Transmembrane protein, putative- -
LA [auth EM],
LC [auth Em]
Transmembrane protein, putative- -
MA [auth EN],
MC [auth En]
COXTT22- - -
D [auth DD],
DB [auth Dd]
Cytochrome C oxidase subunit Vb protein
NA [auth EO],
NC [auth Eo]
Transmembrane protein, putative- - -
OA [auth EP],
OC [auth Ep]
Phage protein- - -
PA [auth EQ],
PC [auth Eq]
Transmembrane protein, putative- -
QA [auth ER],
QC [auth Er]
Lysozyme- - -
RA [auth ES],
RC [auth Es]
Ymf70- -
SA [auth ET],
SC [auth Et]
Zf-Tim10_DDP domain-containing protein- - -
TA [auth EU],
TC [auth Eu]
ABC transporter- - -
UA [auth EJ],
UC [auth Ej]
YflT domain-containing protein- - -
VA [auth EW],
VC [auth Ew]
Cullin domain-containing protein- - -
WA [auth EX],
WC [auth Ex]
Zf-Tim10_DDP domain-containing protein- - -
E [auth DE],
EB [auth De]
Transmembrane protein, putative- -
XA [auth EY],
XC [auth Ey]
Annexin- - -
YA [auth EZ],
YC [auth Ez]
Transposase- - -
ZA [auth FA],
ZC [auth Fa]
Tim10/DDP family zinc finger protein-
AD [auth Dl],
BD [auth DL]
COXBP,Chromosome condensation regulator RCC1 repeat protein,Chromosome condensation regulator RCC1 repeat protein- - -
F [auth DF],
FB [auth Df]
Structural protein- - -
G [auth DG],
GB [auth Dg]
Transmembrane protein, putative- -
H [auth DH],
HB [auth Dh]
Transmembrane protein, putative- -
I [auth DI],
IB [auth Di]
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial- - -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth DA],
AB [auth Da]
IPR036927Cytochrome c oxidase-like, subunit I superfamilyHomologous Superfamily
A [auth DA],
AB [auth Da]
IPR000883Cytochrome c oxidase subunit IFamily
A [auth DA],
AB [auth Da]
IPR023615Cytochrome c oxidase, subunit I, copper-binding siteBinding Site
A [auth DA],
AB [auth Da]
IPR023616Cytochrome c oxidase-like, subunit I domainDomain
K [auth DK],
KB [auth Dk]
IPR020604CTF transcription factor/nuclear factor 1, DNA-binding domainDomain
K [auth DK],
KB [auth Dk]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
O [auth DP],
OB [auth Dp]
IPR002994Surfeit locus 1/Shy1Family
O [auth DP],
OB [auth Dp]
IPR045214Surfeit locus 1/4Family
P [auth DQ],
PB [auth Dq]
IPR046345TraB/PryY-likeFamily
R [auth DS],
RB [auth Ds]
IPR018108Mitochondrial substrate/solute carrierRepeat
R [auth DS],
RB [auth Ds]
IPR023395Mitochondrial carrier domain superfamilyHomologous Superfamily
B [auth DB],
BB [auth Db]
IPR002429Cytochrome c oxidase subunit II-like C-terminalDomain
B [auth DB],
BB [auth Db]
IPR008972CupredoxinHomologous Superfamily
B [auth DB],
BB [auth Db]
IPR045187Cytochrome c/quinol oxidase subunit IIFamily
T [auth DU],
TB [auth Du]
IPR018108Mitochondrial substrate/solute carrierRepeat
T [auth DU],
TB [auth Du]
IPR023395Mitochondrial carrier domain superfamilyHomologous Superfamily
U [auth DV],
UB [auth Dv]
IPR018108Mitochondrial substrate/solute carrierRepeat
U [auth DV],
UB [auth Dv]
IPR023395Mitochondrial carrier domain superfamilyHomologous Superfamily
V [auth DW],
VB [auth Dw]
IPR002994Surfeit locus 1/Shy1Family
V [auth DW],
VB [auth Dw]
IPR045214Surfeit locus 1/4Family
EA [auth EF],
EC [auth Ef]
IPR018967Iron-binding zinc finger, CDGSH typeDomain
EA [auth EF],
EC [auth Ef]
IPR042216MitoNEET, CDGSH iron-sulfur domainHomologous Superfamily
D [auth DD],
DB [auth Dd]
IPR002124Cytochrome c oxidase, subunit VbFamily
D [auth DD],
DB [auth Dd]
IPR036972Cytochrome c oxidase, subunit Vb superfamilyHomologous Superfamily
SA [auth ET],
SC [auth Et]
IPR035427Tim10-like domain superfamilyHomologous Superfamily
WA [auth EX],
WC [auth Ex]
IPR035427Tim10-like domain superfamilyHomologous Superfamily
ZA [auth FA],
ZC [auth Fa]
IPR004217Tim10-likeDomain
ZA [auth FA],
ZC [auth Fa]
IPR035427Tim10-like domain superfamilyHomologous Superfamily
AD [auth Dl],
BD [auth DL]
IPR000408Regulator of chromosome condensation, RCC1Repeat
AD [auth Dl],
BD [auth DL]
IPR009091Regulator of chromosome condensation 1/beta-lactamase-inhibitor protein IIHomologous Superfamily

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
P [auth DQ],
PB [auth Dq]
AME Parent Component: MET

R [auth DS],
RB [auth Ds]
AME Parent Component: MET

U [auth DV],
UB [auth Dv]
AME Parent Component: MET

GA [auth EH],
GC [auth Eh]
AME Parent Component: MET

IA [auth EV],
IC [auth Ev]
AME Parent Component: MET

D [auth DD],
DB [auth Dd]
SEP Parent Component: SER

RESIDAA0037

PSI-MOD :  O-phospho-L-serine MOD:00046
D [auth DD],
DB [auth Dd]
TPO Parent Component: THR

RESIDAA0037 , AA0038

PSI-MOD :  O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047
PA [auth EQ],
PC [auth Eq]
AME Parent Component: MET

RESIDAA0037 , AA0038

H [auth DH],
HB [auth Dh]
AME Parent Component: MET

RESIDAA0037 , AA0038

I [auth DI],
IB [auth Di]
SEP Parent Component: SER

RESIDAA0037 , AA0038 , AA0037

PSI-MOD :  O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046