8UGN

In-situ structure of typeO supercomplex in respiratory chain (composite)

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	A, DC (1A, 5A)	NADH-ubiquinone oxidoreductase chain 3	polymer	115	13026.5	2	UniProt (O79880) Pfam (PF00507)	Sus scrofa (pig)	NADH dehydrogenase subunit 3
2	B, EC (1B, 5B)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial	polymer	258	28500.2	2	UniProt (A0A4X1VVS8) Pfam (PF01058)	Sus scrofa (pig)
3	C, FC (1C, 5C)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial	polymer	264	30154.3	2	UniProt (A0A286ZNN4) Pfam (PF00329)	Sus scrofa (pig)
4	D, GC (1D, 5D)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial	polymer	476	54168.1	2	UniProt (A0A8D0QM68) Pfam (PF00346)	Sus scrofa (pig)
5	E, HC (1E, 5E)	NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial	polymer	249	27439.5	2	UniProt (A0A4X1VRV3) Pfam (PF01257)	Sus scrofa (pig)
6	F, IC (1F, 5F)	NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial	polymer	464	50637.8	2	UniProt (A0A4X1SZP7) Pfam (PF01512) Pfam (PF22461) Pfam (PF10589)	Sus scrofa (pig)
7	G, JC (1G, 5G)	NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial	polymer	727	79627.4	2	UniProt (A0A287ARY3) Pfam (PF10588) Pfam (PF22117) Pfam (PF22151) Pfam (PF00384) Pfam (PF09326) Pfam (PF13510)	Sus scrofa (pig)
8	H, KC (1H, 5H)	NADH-ubiquinone oxidoreductase chain 1	polymer	318	35619.4	2	UniProt (A0A0U1RS44) Pfam (PF00146)	Sus scrofa (pig)
9	I, LC (1I, 5I)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial	polymer	239	27135.0	2	UniProt (A0A286ZUN9) Pfam (PF12838)	Sus scrofa (pig)
10	J, MC (1J, 5J)	NADH-ubiquinone oxidoreductase chain 6	polymer	175	19021.3	2	UniProt (O79882) Pfam (PF00499)	Sus scrofa (pig)
11	K, NC (1K, 5K)	NADH-ubiquinone oxidoreductase chain 4L	polymer	98	10855.3	2	UniProt (P56632) Pfam (PF00420)	Sus scrofa (pig)	NADH dehydrogenase subunit 4L
12	L, OC (1L, 5L)	NADH-ubiquinone oxidoreductase chain 5	polymer	606	68723.5	2	UniProt (Q9TDR1) Pfam (PF00662) Pfam (PF00361) Pfam (PF06455)	Sus scrofa (pig)	NADH dehydrogenase subunit 5
13	M, PC (1M, 5M)	NADH-ubiquinone oxidoreductase chain 4	polymer	459	51887.4	2	UniProt (O79881) Pfam (PF01059) Pfam (PF00361)	Sus scrofa (pig)	NADH dehydrogenase subunit 4
14	N, QC (1N, 5N)	NADH-ubiquinone oxidoreductase chain 2	polymer	347	39105.5	2	UniProt (O79875) Pfam (PF00361) Pfam (PF06444)	Sus scrofa (pig)	NADH dehydrogenase subunit 2
15	O, RC (1O, 5O)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial	polymer	357	40476.1	2	UniProt (F1SIS9) Pfam (PF01712)	Sus scrofa (pig)
16	P, SC (1P, 5P)	NADH:ubiquinone oxidoreductase subunit A9	polymer	377	42606.3	2	UniProt (A0A4X1ULW2) Pfam (PF01370)	Sus scrofa (pig)
17	Q, TC (1Q, 5Q)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial	polymer	175	19746.5	2	UniProt (A0A4X1SN37) Pfam (PF04800)	Sus scrofa (pig)
18	R, UC (1R, 5R)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial	polymer	123	13349.0	2	UniProt (A0A4X1THU2) Pfam (PF10276)	Sus scrofa (pig)
19	S, VC (1S, 5S)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2	polymer	99	11099.8	2	UniProt (A0A8D1FN21) Pfam (PF05047)	Sus scrofa (pig)
20	T, U, WC, XC (1T, 1U, 5T, 5U)	NADH:ubiquinone oxidoreductase subunit AB1	polymer	156	17338.2	4	UniProt (A0A8D1KH26) Pfam (PF00550)	Sus scrofa (pig)
21	V, YC (1V, 5V)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 isoform X1	polymer	116	13321.6	2	UniProt (A0A8D0UWW0) Pfam (PF04716)	Sus scrofa (pig)
22	W, ZC (1W, 5W)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6	polymer	128	14953.3	2	UniProt (A0A480VKQ8) Pfam (PF05347)	Sus scrofa (pig)
23	AD, X (1X, 5X)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8	polymer	172	20064.1	2	UniProt (A0A8D0K6B5) Pfam (PF06747)	Sus scrofa (pig)
24	BD, Y (1Y, 5Y)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11	polymer	141	14686.9	2	UniProt (I3LGM4) Pfam (PF02466)	Sus scrofa (pig)
25	CD, Z (1Z, 5Z)	NADH:ubiquinone oxidoreductase subunit A13	polymer	144	16911.6	2	UniProt (A0A8D0K655) Pfam (PF06212)	Sus scrofa (pig)
26	AA, DD (1a, 5a)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1	polymer	70	8034.4	2	UniProt (A0A8D0TJQ4) Pfam (PF15879)	Sus scrofa (pig)
27	BA, ED (1b, 5b)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3	polymer	84	9225.6	2	UniProt (A0A4X1VQ42) Pfam (PF14987)	Sus scrofa (pig)
28	CA, FD (1c, 5c)	NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial	polymer	76	8664.1	2	UniProt (A0A8D1EYQ2)	Sus scrofa (pig)
29	DA, GD (1d, 5d)	NADH dehydrogenase [ubiquinone] 1 subunit C2	polymer	122	14327.7	2	UniProt (A0A480JRW3) Pfam (PF06374)	Sus scrofa (pig)
30	EA, HD (1e, 5e)	NADH dehydrogenase [ubiquinone] iron-sulfur protein 5	polymer	106	12506.6	2	UniProt (A0A4X1VX77) Pfam (PF10200)	Sus scrofa (pig)
31	FA, ID (1f, 5f)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 [Sus scrofa]	polymer	135	15371.9	2	UniProt (A0A8D1IZ33) Pfam (PF08040)	Sus scrofa (pig)
32	GA, JD (1g, 5g)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial	polymer	154	17384.7	2	UniProt (A0A8D1EYI7) Pfam (PF10183)	Sus scrofa (pig)
33	HA, KD (1h, 5h)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial	polymer	189	21587.0	2	UniProt (F1SGC6) Pfam (PF09781)	Sus scrofa (pig)
34	IA, LD (1i, 5i)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6	polymer	128	15645.2	2	UniProt (A0A4X1UIV8) Pfam (PF09782)	Sus scrofa (pig)
35	JA, MD (1j, 5j)	NADH:ubiquinone oxidoreductase subunit B2	polymer	105	11939.4	2	UniProt (A0A8D1G9F4) Pfam (PF14813)	Sus scrofa (pig)
36	KA, ND (1k, 5k)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3	polymer	98	11128.5	2	UniProt (A0A4X1VD84) Pfam (PF08122)	Sus scrofa (pig)
37	LA, OD (1l, 5l)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial	polymer	186	21658.4	2	UniProt (B8Y651) Pfam (PF05821)	Sus scrofa (pig)
38	MA, PD (1m, 5m)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4	polymer	129	15117.4	2	UniProt (A0A4X1T6M0) Pfam (PF07225)	Sus scrofa (pig)
39	NA, QD (1n, 5n)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9	polymer	179	21864.9	2	UniProt (K7GSE5) Pfam (PF05347)	Sus scrofa (pig)
40	OA, RD (1o, 5o)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7	polymer	137	16567.0	2	UniProt (F1SCH1) Pfam (PF05676)	Sus scrofa (pig)	Complex I-B18,NADH-ubiquinone oxidoreductase B18 subunit
41	PA, SD (1p, 5p)	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10	polymer	176	20944.8	2	UniProt (A0A8D0R7A9) Pfam (PF10249)	Sus scrofa (pig)
42	QA, TD (1q, 5q)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12	polymer	145	17162.4	2	UniProt (F1SQP4) Pfam (PF05071)	Sus scrofa (pig)
43	RA, UD (1r, 5r)	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7	polymer	113	12648.6	2	UniProt (A0A8W4F7N8) Pfam (PF07347)	Sus scrofa (pig)
44	SA, VD (1s, 5s)	NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial	polymer	471	48217.8	2	UniProt (A0A4X1TE42) Pfam (PF15880)	Sus scrofa (pig)
45	DB, TA (3A, 3N)	Cytochrome b-c1 complex subunit 1, mitochondrial	polymer	480	52756.3	2	UniProt (A0A8D0PK14) Pfam (PF00675) Pfam (PF05193)	Sus scrofa (pig)
46	EB, UA (3B, 3O)	Cytochrome b-c1 complex subunit 2, mitochondrial	polymer	453	48262.4	2	UniProt (F1RPD2) Pfam (PF00675) Pfam (PF05193)	Sus scrofa (pig)
47	FB, VA (3C, 3P)	Cytochrome b	polymer	379	42840.7	2	UniProt (Q1HBG9) Pfam (PF00033) Pfam (PF00032)	Sus scrofa (pig)
48	GB, WA (3D, 3Q)	Cytochrome c1	polymer	326	35488.9	2	UniProt (A0A287AZF9) Pfam (PF02167)	Sus scrofa (pig)
49	BB, HB, LB, XA (3E, 3I, 3R, 3V)	Cytochrome b-c1 complex subunit Rieske, mitochondrial	polymer	274	29542.7	4	UniProt (A0A4X1TWD8) Pfam (PF09165) Pfam (PF02921) Pfam (PF00355)	Sus scrofa (pig)
50	IB, YA (3F, 3S)	Cytochrome b-c1 complex subunit 7	polymer	111	13587.5	2	UniProt (A0A286ZPR8) Pfam (PF02271)	Sus scrofa (pig)
51	JB, ZA (3G, 3T)	Cytochrome b-c1 complex subunit 8	polymer	82	9784.3	2	UniProt (A0A8D0SHY6) Pfam (PF02939)	Sus scrofa (pig)
52	AB, KB (3H, 3U)	Cytochrome b-c1 complex subunit 6, mitochondrial	polymer	91	10685.8	2	UniProt (A0A8D1JI21) Pfam (PF02320)	Sus scrofa (pig)
53	CB, MB (3J, 3W)	Ubiquinol-cytochrome c reductase complex 7.2 kDa protein 53 complext iii	polymer	64	7281.3	2	UniProt (Q2EN79) Pfam (PF05365)	Sus scrofa (pig)
54	NB, OB (3X, 3Y)	Cytochrome b-c1 complex subunit 10	polymer	56	6560.7	2	UniProt (F1SDI2) Pfam (PF08997)	Sus scrofa (pig)
55	PB, WD (4A, 8A)	Cytochrome c oxidase subunit 1	polymer	514	57020.7	2	UniProt (O79876) Pfam (PF00115)	Sus scrofa (pig)	Cytochrome c oxidase polypeptide I
56	QB, XD (4B, 8B)	Cytochrome c oxidase subunit 2	polymer	229	26288.6	2	UniProt (Q69GF7) Pfam (PF02790) Pfam (PF00116)	Sus scrofa (pig)
57	RB, YD (4C, 8C)	Cytochrome c oxidase subunit 3	polymer	261	29753.4	2	UniProt (Q35916) Pfam (PF00510)	Sus scrofa (pig)
58	SB, ZD (4D, 8D)	Cytochrome c oxidase subunit 4	polymer	169	19670.7	2	UniProt (A0A4X1T8J9) Pfam (PF02936)	Sus scrofa (pig)
59	AE, TB (4E, 8E)	Cytochrome c oxidase subunit 5A, mitochondrial	polymer	152	16771.2	2	UniProt (F1SJ34) Pfam (PF02284)	Sus scrofa (pig)
60	BE, UB (4F, 8F)	Cytochrome c oxidase subunit 5B, mitochondrial	polymer	128	13663.6	2	UniProt (Q5S3G4) Pfam (PF01215)	Sus scrofa (pig)	Cytochrome c oxidase polypeptide Vb
61	CE, VB (4G, 8G)	Cytochrome c oxidase subunit 6A2	polymer	97	10876.4	2	UniProt (A0A287AEB7) Pfam (PF02046)	Sus scrofa (pig)
62	DE, WB (4H, 8H)	Cytochrome c oxidase subunit 6B1	polymer	86	10204.5	2	UniProt (A1XQT1) Pfam (PF02297)	Sus scrofa (pig)
63	EE, XB (4I, 8I)	Cytochrome c oxidase subunit 6C	polymer	75	8617.1	2	UniProt (A0A4X1TXH1) Pfam (PF02937)	Sus scrofa (pig)
64	FE, YB (4J, 8J)	Cytochrome c oxidase subunit 7A1, mitochondrial	polymer	80	9028.5	2	UniProt (Q8SPJ9) Pfam (PF02238)	Sus scrofa (pig)
65	GE, ZB (4K, 8K)	Cytochrome c oxidase subunit 7B	polymer	80	9169.5	2	UniProt (A0A287BJ57) Pfam (PF05392)	Sus scrofa (pig)
66	AC, HE (4L, 8L)	Cytochrome c oxidase subunit 7C, mitochondrial	polymer	63	7358.7	2	UniProt (Q1W0Y2) Pfam (PF02935)	Sus scrofa (pig)
67	BC, IE (4M, 8M)	Cytochrome c oxidase subunit 8	polymer	70	7615.9	2	UniProt (A1XQT4) Pfam (PF02285)	Sus scrofa (pig)
68	CC, JE (4N, 8N)	Cytochrome c oxidase subunit NDUFA4	polymer	82	9322.8	2	UniProt (A1XQS3) Pfam (PF06522)	Sus scrofa (pig)
69	AJ, CF, DH, DK, GG... (5B, 1I, 3J, 5P, 1d...)	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	non-polymer		790.1	31	Chemie (PC1)
70	AF, BF, DJ, EJ, FJ... (1I, 5F, 5G, 5I, 1B...)	IRON/SULFUR CLUSTER	non-polymer		351.6	12	Chemie (SF4)
71	AH, BJ, GJ, NH, QE... (3E, 5E, 5G, 3R, 1E...)	FE2/S2 (INORGANIC) CLUSTER	non-polymer		175.8	6	Chemie (FES)
72	CJ, RE (5F, 1F)	FLAVIN MONONUCLEOTIDE	non-polymer		456.3	2	Chemie (FMN)
73	HJ, WE (5G, 1G)	POTASSIUM ION	non-polymer		39.1	2	Chemie (K)
74	AK, AL, CH, CI, FH... (5N, 5q, 3G, 4B, 3N...)	CARDIOLIPIN	non-polymer		1464.0	26	Chemie (CDL)
75	DF, ZK (1I, 5q)	N-ACETYLALANINE	non-polymer		131.1	2	Chemie (AYA)
76	AG, BG, BH, CG, DG... (1Y, 3G, 1K, 1b, 3N...)	1,2-Distearoyl-sn-glycerophosphoethanolamine	non-polymer		748.1	47	Chemie (3PE)
77	BK, RF (5O, 1O)	GUANOSINE-5'-TRIPHOSPHATE	non-polymer		523.2	2	Chemie (GTP)
78	CK, GL, SF, YH (5O, 8A, 1O, 4A)	MAGNESIUM ION	non-polymer		24.3	4	Chemie (MG)
79	EK, TF (5P, 1P)	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	non-polymer		745.4	2	Chemie (NDP)
80	GK, NI, VF, VL (5R, 4F, 1R, 8F)	ZINC ION	non-polymer		65.4	4	Chemie (ZN)
81	HK, MG, WF, WK (5T, 1n, 1T, 5n)	~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate	non-polymer		584.7	4	Chemie (EHZ)
82	IG, SK (1h, 5h)	N-ACETYLMETHIONINE	non-polymer		191.2	2	Chemie (AME)
83	NG, XK (1o, 5o)	MYRISTIC ACID	non-polymer		228.4	2	Chemie (MYR)
84	HH, IH, TG, UG (3P, 3C)	PROTOPORPHYRIN IX CONTAINING FE	non-polymer		616.5	4	Chemie (HEM)
85	LH, YG (3Q, 3D)	HEME C	non-polymer		618.5	2	Chemie (HEC)
86	AM, BI, BL, BM, CL... (8J, 4B, 8A, 8K, 8L...)	(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE	non-polymer		749.0	30	Chemie (PGV)
87	DL, EL, VH, WH (8A, 4A)	HEME-A	non-polymer		852.8	4	Chemie (HEA)
88	FL, XH (8A, 4A)	COPPER (II) ION	non-polymer		63.5	2	Chemie (CU)
89	HL, ZH (8A, 4A)	SODIUM ION	non-polymer		23.0	2	Chemie (NA)
90	AI, ZL (4A, 8I)	(7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE	non-polymer		759.1	2	Chemie (PSC)
91	DI, LL (4B, 8B)	DINUCLEAR COPPER ION	non-polymer		127.1	2	Chemie (CUA)
92	LI, PI, TL, XL (4C, 4G, 8C, 8G)	(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE	non-polymer		768.1	4	Chemie (PEK)
93	QI, YL (4H, 8H)	PHOSPHATE ION	non-polymer		95.0	2	Chemie (PO4)

Sequence modifications

1C, 5C: -35 - 228 (UniProt: A0A286ZNN4)

PDB	External Database	Details
Gln 104	Arg 140	conflict
Gly 154	Asp 190	conflict

1D, 5D: -32 - 430 (UniProt: A0A8D0QM68)

PDB	External Database	Details
Gly 0	Glu 33	conflict

1f, 5f: -48 - 57 (UniProt: A0A8D1IZ33)

PDB	External Database	Details
Met -77	-	initiating methionine
Ala -76	-	expression tag
Ala -75	-	expression tag
Ala -74	-	expression tag
Ile -73	-	expression tag
Leu -72	-	expression tag
Lys -71	-	expression tag
Leu -70	-	expression tag
Glu -69	-	expression tag
Glu -68	-	expression tag
Thr -67	-	expression tag
Arg -66	-	expression tag
Gly -65	-	expression tag
Gly -64	-	expression tag
Gly -63	-	expression tag
Glu -62	-	expression tag
Lys -61	-	expression tag
Cys -60	-	expression tag
Asp -59	-	expression tag
Lys -58	-	expression tag
Asn -57	-	expression tag
Gln -56	-	expression tag
Gly -55	-	expression tag
Val -54	-	expression tag
Lys -53	-	expression tag
Gly -52	-	expression tag
Arg -51	-	expression tag
Arg -50	-	expression tag
Phe -49	-	expression tag

1o, 5o: 1 - 136 (UniProt: F1SCH1)

PDB	External Database	Details
Myr 0	-	insertion

3E, 3I, 3R, 3V: 1 - 274 (UniProt: A0A4X1TWD8)

PDB	External Database	Details
Val 34	Leu 34	conflict
Leu 45	Ala 45	conflict
Val 49	Phe 49	conflict
Arg 56	Ser 56	conflict

3J, 3W: 4 - 67 (UniProt: Q2EN79)

PDB	External Database	Details
Asn 60	Lys 57	conflict
Gln 61	His 58	conflict
Gly 62	Lys 59	conflict
Lys 63	Tyr 60	conflict

Contents of the asymmetric unit

Polymers	Number of chains	140
	Total formula weight	3238968.4
Non-Polymers*	Number of molecules	202
	Total formula weight	145112.6
All*	Total formula weight	3384081.0

*Water molecules are not included.