8B6F

Cryo-EM structure of NADH:ubiquinone oxidoreductase (complex-I) 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	A0	Lipid-A-disaccharide synthase	polymer	516	59307.3	1	UniProt (Q22E24) Pfam (PF02684) In PDB	Tetrahymena thermophila SB210
2	A1	NAD-dependent epimerase/dehydratase family protein	polymer	362	41375.1	1	UniProt (I7MLH2) Pfam (PF01370) In PDB	Tetrahymena thermophila SB210
3	A2	DnaJ domain protein	polymer	317	36878.4	1	UniProt (Q22DR7) Pfam (PF00226) In PDB	Tetrahymena thermophila SB210
4	A3	Acyl-CoA synthetase (AMP-forming)/AMP-acid ligase II	polymer	333	36709.4	1	UniProt (Q24HK5) Pfam (PF00501) In PDB	Tetrahymena thermophila SB210
5	A4	RNase III domain-containing protein	polymer	311	35409.2	1	UniProt (I7LUQ4) In PDB	Tetrahymena thermophila SB210
6	A5	37S ribosomal protein S25, mitochondrial	polymer	282	33201.8	1	UniProt (I7MIJ7) In PDB	Tetrahymena thermophila SB210
7	A6	Transmembrane protein, putative	polymer	251	29389.7	1	UniProt (Q24C39) In PDB	Tetrahymena thermophila SB210
8	A7	CX9C domain-containing protein	polymer	238	28412.8	1	UniProt (I7MMF4) In PDB	Tetrahymena thermophila SB210
9	A8	NDUTT15	polymer	217	25493.3	1		Tetrahymena thermophila SB210
10	A9	Transmembrane protein, putative	polymer	231	26545.1	1	UniProt (Q24F24) In PDB	Tetrahymena thermophila SB210
11	AA	NADH dehydrogenase subunit 5	polymer	750	88179.8	1	UniProt (Q950Z0) Pfam (PF00361) In PDB	Tetrahymena thermophila SB210
12	AB	NADH-ubiquinone oxidoreductase 75 kDa subunit	polymer	718	80580.8	1	UniProt (Q23KA9) Pfam (PF13510) Pfam (PF10588) Pfam (PF00384) Pfam (PF09326) In PDB	Tetrahymena thermophila SB210
13	AC	NADH-ubiquinone oxidoreductase chain 4	polymer	505	58690.0	1	UniProt (Q950X9) Pfam (PF00361) In PDB	Tetrahymena thermophila SB210
14	AD	NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial	polymer	474	52313.7	1	UniProt (Q23KE4) Pfam (PF01512) Pfam (PF10531) Pfam (PF10589) In PDB	Tetrahymena thermophila SB210
15	AE	NADH dehydrogenase subunit 7	polymer	442	51227.5	1	UniProt (Q951B1) Pfam (PF00346) In PDB	Tetrahymena thermophila SB210
16	AF	Ymf65	polymer	360	43146.2	1	UniProt (Q951A3) Pfam (PF00361) In PDB	Tetrahymena thermophila SB210
17	AG	Transcription factor apfi protein, putative	polymer	346	39793.4	1	UniProt (I7M8Q7) Pfam (PF00132) In PDB	Tetrahymena thermophila SB210
18	AH	NADH-ubiquinone oxidoreductase chain 1	polymer	284	32636.8	1	UniProt (Q950Y3) Pfam (PF00146) In PDB	Tetrahymena thermophila SB210
19	AI	NADH-ubiquinone oxidoreductase 24 kDa subunit	polymer	274	31216.7	1	UniProt (I7MEP0) Pfam (PF01257) In PDB	Tetrahymena thermophila SB210
20	AJ	Ymf62	polymer	255	30448.5	1	UniProt (Q950Y2) In PDB	Tetrahymena thermophila SB210
21	AK	Gamma-carbonic anhydrase	polymer	257	28216.7	1	UniProt (Q22XU5) Pfam (PF21711) In PDB	Tetrahymena thermophila SB210
22	AL	NADH-ubiquinone oxidoreductase 1, chain, putative	polymer	236	28053.5	1	UniProt (I7MDW5) Pfam (PF12838) In PDB	Tetrahymena thermophila SB210
23	AM	Gamma-carbonic anhydrase	polymer	233	25396.0	1	UniProt (I7M6S0) Pfam (PF21711) In PDB	Tetrahymena thermophila SB210
24	AN	ETC complex I subunit motif protein	polymer	206	24277.9	1	UniProt (Q23ND5) Pfam (PF04716) In PDB	Tetrahymena thermophila SB210
25	AO	NADH dehydrogenase subunit 9	polymer	198	23830.3	1	UniProt (Q950Z3) Pfam (PF00329) In PDB	Tetrahymena thermophila SB210
26	AP	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12	polymer	194	22890.6	1	UniProt (A4VDQ6) Pfam (PF05071) In PDB	Tetrahymena thermophila SB210
27	AQ	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial	polymer	189	22698.3	1	UniProt (Q233X7) In PDB	Tetrahymena thermophila SB210
28	AR	NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial	polymer	185	21642.4	1	UniProt (I7MK61) Pfam (PF04800) In PDB	Tetrahymena thermophila SB210
29	AS	NADH dehydrogenase, putative	polymer	172	20167.9	1	UniProt (I7M2Y3) In PDB	Tetrahymena thermophila SB210
30	AT	NADH dehydrogenase subunit 10	polymer	162	18324.3	1	UniProt (Q951B4) Pfam (PF01058) In PDB	Tetrahymena thermophila SB210
31	AU	NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit	polymer	150	17381.8	1	UniProt (I7LT42) Pfam (PF10785) In PDB	Tetrahymena thermophila SB210
32	AV	Acyl carrier protein	polymer	138	16249.4	1	UniProt (Q22XT6) Pfam (PF00550) In PDB	Tetrahymena thermophila SB210
33	AW	Acyl carrier protein	polymer	133	15428.4	1	UniProt (I7MD12) Pfam (PF00550) In PDB	Tetrahymena thermophila SB210
34	AX	NADH-ubiquinone oxidoreductase chain 3	polymer	121	14416.9	1	UniProt (Q950Z7) Pfam (PF00507) In PDB	Tetrahymena thermophila SB210
35	AY	Ymf58	polymer	116	13509.9	1	UniProt (Q950Z5) In PDB	Tetrahymena thermophila SB210
36	AZ	Ribosomal protein L51/S25/CI-B8 domain protein	polymer	103	12157.8	1	UniProt (I7MA77) Pfam (PF05047) In PDB	Tetrahymena thermophila SB210
37	B0	Transmembrane protein, putative	polymer	94	11451.2	1	UniProt (I7MI60) In PDB	Tetrahymena thermophila SB210
38	B1	ATP synthase subunit e, mitochondrial	polymer	93	11283.5	1	UniProt (Q22E95) In PDB	Tetrahymena thermophila SB210
39	B2	GRAM domain protein	polymer	94	10920.4	1	UniProt (W7X4R4) In PDB	Tetrahymena thermophila SB210
40	B3	Transmembrane protein, putative	polymer	83	9942.4	1	UniProt (A4VD20) In PDB	Tetrahymena thermophila SB210
41	B4	Transmembrane protein, putative	polymer	73	8787.1	1	UniProt (Q22DC2) In PDB	Tetrahymena thermophila SB210
42	B5	Transmembrane protein, putative	polymer	71	8445.9	1	UniProt (I7MIK1) In PDB	Tetrahymena thermophila SB210
43	B6	ND1b	polymer	59	7238.8	1		Tetrahymena thermophila SB210
44	BA	Transmembrane protein	polymer	212	24823.3	1	UniProt (I7MIE0) In PDB	Tetrahymena thermophila SB210
45	BB	Transmembrane protein, putative	polymer	214	24419.2	1	UniProt (Q22Z32) In PDB	Tetrahymena thermophila SB210
46	BC	NDUB8	polymer	207	24150.5	1	UniProt (I7M855) In PDB	Tetrahymena thermophila SB210
47	BD	Transmembrane protein, putative	polymer	205	23971.0	1	UniProt (I7LT77) In PDB	Tetrahymena thermophila SB210
48	BE	NDUPH2	polymer	189	22446.6	1	UniProt (Q23KE0) In PDB	Tetrahymena thermophila SB210
49	BF	NDUB10	polymer	188	22167.1	1	UniProt (Q23KG0) In PDB	Tetrahymena thermophila SB210
50	BG	NDUA13	polymer	175	21045.6	1	UniProt (I7M2U4) In PDB	Tetrahymena thermophila SB210
51	BH	NADH dehydrogenase subunit 2	polymer	178	20899.9	1	UniProt (Q951B2) Pfam (PF00361) In PDB	Tetrahymena thermophila SB210
52	BI	2 iron, 2 sulfur cluster-binding protein	polymer	172	19564.2	1	UniProt (Q22W11) Pfam (PF00111) In PDB	Tetrahymena thermophila SB210
53	BJ	Thioredoxin	polymer	166	19540.2	1	UniProt (Q22AI5) Pfam (PF00085) In PDB	Tetrahymena thermophila SB210
54	BK	COX assembly mitochondrial protein	polymer	144	17078.3	1	UniProt (I7M1N8) In PDB	Tetrahymena thermophila SB210
55	BL	Transmembrane protein, putative	polymer	143	16909.2	1	UniProt (Q22HE4) In PDB	Tetrahymena thermophila SB210
56	BM	Transmembrane protein, putative	polymer	135	15831.7	1	UniProt (I7M9B3) In PDB	Tetrahymena thermophila SB210
57	BN	PH domain-containing protein	polymer	135	15785.2	1	UniProt (Q22SC4) In PDB	Tetrahymena thermophila SB210
58	BO	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8	polymer	136	15689.8	1	UniProt (Q23B10) In PDB	Tetrahymena thermophila SB210
59	BP	NDUB6	polymer	129	15444.3	1	UniProt (Q231G0) In PDB	Tetrahymena thermophila SB210
60	BQ	NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4	polymer	127	15193.6	1	UniProt (I7MAF0) In PDB	Tetrahymena thermophila SB210
61	BR	Zinc-finger protein	polymer	132	15141.3	1	UniProt (I7MK02) Pfam (PF10276) In PDB	Tetrahymena thermophila SB210
62	BS	NDUB4	polymer	126	14410.4	1	UniProt (I7MG29) In PDB	Tetrahymena thermophila SB210
63	BT	NDUB15	polymer	125	14963.5	1		Tetrahymena thermophila SB210
64	BU	NDUTT16	polymer	134	15334.4	1		Tetrahymena thermophila SB210
65	BV	NDUTT17	polymer	125	13983.0	1		Tetrahymena thermophila SB210
66	BW	CHCH domain-containing protein	polymer	120	13747.4	1	UniProt (I7MIM0) In PDB	Tetrahymena thermophila SB210
67	BX	Transmembrane protein, putative	polymer	113	13341.0	1	UniProt (Q22T55) In PDB	Tetrahymena thermophila SB210
68	BY	Ymf57	polymer	100	12473.9	1	UniProt (Q951C2) In PDB	Tetrahymena thermophila SB210
69	BZ	Complex I-MNLL	polymer	102	12103.0	1	UniProt (Q22W63) In PDB	Tetrahymena thermophila SB210
70	AF, BC, BE, BG, BL...	CARDIOLIPIN	non-polymer		1464.0	22	Chemie (CDL)
71	A0	URIDINE-5'-DIPHOSPHATE	non-polymer		404.2	1	Chemie (UDP)
72	A8, A0	MAGNESIUM ION	non-polymer		24.3	2	Chemie (MG)
73	A2, AH, A6, AJ, A9...	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	non-polymer		790.1	27	Chemie (PC1)
74	A1	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE	non-polymer		745.4	1	Chemie (NDP)
75	A2, AJ, BP, A9, BA	1,2-Distearoyl-sn-glycerophosphoethanolamine	non-polymer		748.1	6	Chemie (3PE)
76	A6, BN, AL, AA	2-(HEXADECANOYLOXY)-1-[(PHOSPHONOOXY)METHYL]ETHYL HEXADECANOATE	non-polymer		648.9	4	Chemie (LPP)
77	A8, AQ	ADENOSINE-5'-DIPHOSPHATE	non-polymer		427.2	2	Chemie (ADP)
78	AI, BI, AB	FE2/S2 (INORGANIC) CLUSTER	non-polymer		175.8	3	Chemie (FES)
79	AL, AT, AB, AD	IRON/SULFUR CLUSTER	non-polymer		351.6	6	Chemie (SF4)
80	AD	FLAVIN MONONUCLEOTIDE	non-polymer		456.3	1	Chemie (FMN)
81	AS	S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate	non-polymer		540.7	1	Chemie (8Q1)
82	BR	ZINC ION	non-polymer		65.4	1	Chemie (ZN)

Sequence modifications

AF: 1 - 360 (UniProt: Q951A3)

PDB	External Database	Details
Val 208	Gly 208	conflict

Contents of the asymmetric unit

Polymers	Number of chains	69
	Total formula weight	1714124.8
Non-Polymers*	Number of molecules	77
	Total formula weight	66379.1
All*	Total formula weight	1780503.9

*Water molecules are not included.