8B6H

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

This is a non-PDB format compatible entry.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	DA, Da	Cytochrome c oxidase subunit 1	polymer	688	80579.0	2	UniProt (Q950Y4) Pfam (PF00115) In PDB	Tetrahymena thermophila SB210
2	DB, Db	Cytochrome c oxidase subunit 2	polymer	604	72388.9	2	UniProt (Q950Y9) Pfam (PF00116) In PDB	Tetrahymena thermophila SB210
3	DC, Dc	Ymf68	polymer	594	72782.5	2	UniProt (Q950Y6) In PDB	Tetrahymena thermophila SB210
4	DD, Dd	Cytochrome C oxidase subunit Vb protein	polymer	637	75431.3	2	UniProt (Q23FF5) Pfam (PF01215) In PDB	Tetrahymena thermophila SB210
5	DE, De	Transmembrane protein, putative	polymer	130	15618.3	2	UniProt (W7XCY5) In PDB	Tetrahymena thermophila SB210
6	DF, Df	Structural protein	polymer	230	27946.4	2	UniProt (Q24I72) In PDB	Tetrahymena thermophila SB210
7	DG, Dg	Transmembrane protein, putative	polymer	103	12786.3	2	UniProt (Q23DS4) In PDB	Tetrahymena thermophila SB210
8	DH, Dh	Transmembrane protein, putative	polymer	133	16427.7	2	UniProt (I7MGF9) In PDB	Tetrahymena thermophila SB210
9	DI, Di	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial	polymer	236	28666.7	2	UniProt (W7X287) In PDB	Tetrahymena thermophila SB210
10	DJ, Dj	Transmembrane protein, putative	polymer	220	26601.2	2	UniProt (W7WZP1) In PDB	Tetrahymena thermophila SB210
11	DK, Dk	CTF/NF-I domain-containing protein	polymer	990	116812.8	2	UniProt (Q22CI1) In PDB	Tetrahymena thermophila SB210
12	DM, Dm	Transmembrane protein, putative	polymer	490	57814.5	2	UniProt (Q22PJ5) In PDB	Tetrahymena thermophila SB210
13	DN, Dn	Ymf67	polymer	453	54538.5	2	UniProt (Q950Y7) In PDB	Tetrahymena thermophila SB210
14	DO, Do	Protein phosphatase 2C, putative	polymer	473	53011.3	2	UniProt (Q22FX8) In PDB	Tetrahymena thermophila SB210
15	DP, Dp	SURF1-like protein	polymer	402	47088.0	2	UniProt (I7M1Q4) Pfam (PF02104) In PDB	Tetrahymena thermophila SB210
16	DQ, Dq	TraB family protein	polymer	385	45064.9	2	UniProt (Q23DP7) In PDB	Tetrahymena thermophila SB210
17	DR, Dr	Transmembrane protein, putative	polymer	348	41307.4	2	UniProt (Q23DG8) In PDB	Tetrahymena thermophila SB210
18	DS, Ds	Oxoglutarate/malate translocator protein, putative	polymer	346	40434.3	2	UniProt (A4VDV3) Pfam (PF00153) In PDB	Tetrahymena thermophila SB210
19	DT, Dt	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8, mitochondrial	polymer	318	37553.0	2	UniProt (Q23DZ5) In PDB	Tetrahymena thermophila SB210
20	DU, Du	Carrier protein	polymer	330	37095.1	2	UniProt (Q22ZA6) Pfam (PF00153) In PDB	Tetrahymena thermophila SB210
21	DV, Dv	2-oxoglutarate/malate carrier protein	polymer	318	36132.3	2	UniProt (Q23M99) Pfam (PF00153) In PDB	Tetrahymena thermophila SB210
22	DW, Dw	SURF1-like protein	polymer	318	35794.4	2	UniProt (I7LTZ4) Pfam (PF02104) In PDB	Tetrahymena thermophila SB210
23	DX, Dx	COXTT9	polymer	252	29865.7	2	UniProt (I7LY65) In PDB	Tetrahymena thermophila SB210
24	DY, Dy	COXTT10	polymer	234	28101.5	2	UniProt (I7MD70) In PDB	Tetrahymena thermophila SB210
25	DZ, Dz	39S ribosomal protein L9, mitochondrial	polymer	231	27034.7	2	UniProt (W7X4J9) In PDB	Tetrahymena thermophila SB210
26	EA, Ea	COXTT12,Transmembrane protein,Transmembrane protein	polymer	215	25953.8	2	UniProt (I7M3P9) In PDB	Tetrahymena thermophila SB210
27	EB, Eb	Transmembrane protein, putative	polymer	210	24701.1	2	UniProt (I7LZX8) In PDB	Tetrahymena thermophila SB210
28	EC, Ec	COXTT27	polymer	212	23368.4	2		Tetrahymena thermophila SB210
29	ED, Ed	Ymf75	polymer	190	23325.8	2	UniProt (Q951A7) In PDB	Tetrahymena thermophila SB210
30	EE, Ee	Mobilization protein	polymer	193	23257.7	2	UniProt (Q23F08) In PDB	Tetrahymena thermophila SB210
31	EF, Ef	Iron-binding zinc finger CDGSH type protein	polymer	188	21476.9	2	UniProt (I7M8P0) In PDB	Tetrahymena thermophila SB210
32	EG, Eg	COXTT28	polymer	100	11121.6	2		Tetrahymena thermophila SB210
33	EH, Eh	Transmembrane protein, putative	polymer	173	20388.3	2	UniProt (Q23D87) In PDB	Tetrahymena thermophila SB210
34	EI, Ei	Transmembrane protein	polymer	173	20025.1	2	UniProt (I7MKT6) In PDB	Tetrahymena thermophila SB210
35	EV, Ev	Decapping nuclease	polymer	88	10242.7	2	UniProt (I7LVX0) In PDB	Tetrahymena thermophila SB210
36	EK, Ek	Complex III subunit VII	polymer	170	19882.8	2	UniProt (Q230X6) In PDB	Tetrahymena thermophila SB210
37	EL, El	Transmembrane protein, putative	polymer	158	18801.6	2	UniProt (Q23VY4) In PDB	Tetrahymena thermophila SB210
38	EM, Em	Transmembrane protein, putative	polymer	154	18600.4	2	UniProt (Q22DP8) In PDB	Tetrahymena thermophila SB210
39	EN, En	COXTT22	polymer	149	17701.1	2	UniProt (I7MFV5) In PDB	Tetrahymena thermophila SB210
40	EO, Eo	Transmembrane protein, putative	polymer	124	15588.6	2	UniProt (Q23TE5) In PDB	Tetrahymena thermophila SB210
41	EP, Ep	Phage protein	polymer	127	14740.9	2	UniProt (Q24C97) In PDB	Tetrahymena thermophila SB210
42	EQ, Eq	Transmembrane protein, putative	polymer	122	14344.5	2	UniProt (Q22W32) In PDB	Tetrahymena thermophila SB210
43	ER, Er	Lysozyme	polymer	105	12273.9	2	UniProt (I7M9E7) In PDB	Tetrahymena thermophila SB210
44	ES, Es	Ymf70	polymer	89	10891.9	2	UniProt (Q950Y0) In PDB	Tetrahymena thermophila SB210
45	ET, Et	Zf-Tim10_DDP domain-containing protein	polymer	93	10435.7	2	UniProt (Q231A8) In PDB	Tetrahymena thermophila SB210
46	EU, Eu	ABC transporter	polymer	90	10418.7	2	UniProt (I7LTF1) In PDB	Tetrahymena thermophila SB210
47	EJ, Ej	YflT domain-containing protein	polymer	175	19979.3	2	UniProt (I7M8Y9) In PDB	Tetrahymena thermophila SB210
48	EW, Ew	Cullin domain-containing protein	polymer	81	8965.9	2	UniProt (Q22N23) In PDB	Tetrahymena thermophila SB210
49	EX, Ex	Zf-Tim10_DDP domain-containing protein	polymer	72	8354.6	2	UniProt (W7XDM6) In PDB	Tetrahymena thermophila SB210
50	EY, Ey	Annexin	polymer	72	8155.4	2	UniProt (Q233U0) In PDB	Tetrahymena thermophila SB210
51	EZ, Ez	Transposase	polymer	68	8081.1	2	UniProt (Q22A35) In PDB	Tetrahymena thermophila SB210
52	FA, Fa	Tim10/DDP family zinc finger protein	polymer	72	8009.0	2	UniProt (W7X3D6) Pfam (PF02953) In PDB	Tetrahymena thermophila SB210
53	Dl, DL	COXBP,Chromosome condensation regulator RCC1 repeat protein,Chromosome condensation regulator RCC1 repeat protein	polymer	536	58697.8	2	UniProt (Q22RF2) Pfam (PF00415) In PDB	Tetrahymena thermophila SB210
54	DA, Da	HEME-A	non-polymer		852.8	4	Chemie (HEA)
55	DA, Da	COPPER (II) ION	non-polymer		63.5	2	Chemie (CU)
56	DA, Da	MAGNESIUM ION	non-polymer		24.3	2	Chemie (MG)
57	DD, DQ, EL, Dj, Da...	CARDIOLIPIN	non-polymer		1464.0	118	Chemie (CDL)
58	DX, Dx, DQ, Dy, Db...	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	non-polymer		790.1	54	Chemie (PC1)
59	Da, Dr, Dx, Em, DX...	1,2-Distearoyl-sn-glycerophosphoethanolamine	non-polymer		748.1	34	Chemie (3PE)
60	Ed, DA, Dl, Dn, DN...	2-(HEXADECANOYLOXY)-1-[(PHOSPHONOOXY)METHYL]ETHYL HEXADECANOATE	non-polymer		648.9	8	Chemie (LPP)
61	Da, DA	CALCIUM ION	non-polymer		40.1	2	Chemie (CA)
62	Db, DB	DINUCLEAR COPPER ION	non-polymer		127.1	2	Chemie (CUA)
63	Dd, DD	ZINC ION	non-polymer		65.4	2	Chemie (ZN)
64	DD	POTASSIUM ION	non-polymer		39.1	1	Chemie (K)
65	En, EL, Ds, EN, Ed...	Ubiquinone-8	non-polymer		727.1	8	Chemie (UQ8)
66	Ed, ED	PROTOPORPHYRIN IX CONTAINING FE	non-polymer		616.5	2	Chemie (HEM)
67	Ef, EF	FE2/S2 (INORGANIC) CLUSTER	non-polymer		175.8	4	Chemie (FES)
68	Er, ER	ADENOSINE-5'-TRIPHOSPHATE	non-polymer		507.2	2	Chemie (ATP)

Sequence modifications

DA, Da: 1 - 688 (UniProt: Q950Y4)

PDB	External Database	Details
Ala 288	Gly 288	variant

EA, Ea: 8 - 21 (PDB: 8B6H)
EA, Ea: 22 - 222 (UniProt: I7M3P9)
Dl, DL: -73 - 82 (PDB: 8B6H)
Dl, DL: 83 - 411 (UniProt: Q22RF2)
Dl, DL: 412 - 462 (PDB: 8B6H)

Contents of the asymmetric unit

Polymers	Number of chains	106
	Total formula weight	3209322.2
Non-Polymers*	Number of molecules	245
	Total formula weight	258909.0
All*	Total formula weight	3468231.3

*Water molecules are not included.