6ZPO: Bovine ATP synthase monomer state 1

bovine ATP synthase monomer state 1 (combined). Determined by electron microscopy at 4.0 Å resolution. Released 9 Sept 2020.

Method: Electron microscopy
Resolution: 4.0 Å
Organism: Bos taurus
Chains: 29
Atoms: 39,948
Mol. weight: 598.57 kDa
Ligands: LHG, CDL, ADP, MG
Released: 9 Sept 2020

Explore 6ZPO in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6ZPO contains 258 α-helices and 191 β-strands across 29 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain 8: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	2-4	3
α-helix	6-16	11
α-helix	17-23	7
α-helix	24-29	6

Chain a: 13 helices, 1 β-strand

Element	Residues	Length	Sheet
α-helix	6-9	4
α-helix	11-12	2
α-helix	20-25	6
α-helix	26-30	5
β-strand	36	1	48
α-helix	41-58	18
α-helix	63-66	4
α-helix	69-86	18
α-helix	98-119	22
α-helix	122-126	5
α-helix	135-137	3
α-helix	138-180	43
α-helix	181-183	3
α-helix	186-224	39

Chain A: 22 helices, 32 β-strands

Element	Residues	Length	Sheet
α-helix	9-16	8
β-strand	28-35	8	1
β-strand	38-43	6	1
α-helix	47	1
β-strand	48	1	2
β-strand	51-55	5	1
β-strand	60-66	7	1
β-strand	71-75	5	1
β-strand	87-94	8	1
β-strand	96-99	4	3
α-helix	101-103	3
β-strand	107-109	3	4
β-strand	114	1	4
β-strand	125-128	4	3
β-strand	139	1	5
β-strand	145	1	6
α-helix	151-156	6
β-strand	160	1	6
β-strand	164	1	4
β-strand	167-169	3	7
α-helix	175-184	10
α-helix	187-191	5
β-strand	200-206	7	4
α-helix	210-222	13
β-strand	229-234	6	4
α-helix	240-259	20
β-strand	263-269	7	4
α-helix	271-284	14
α-helix	287-288	2
β-strand	289	1	8
α-helix	291-293	3
β-strand	295	1	8
α-helix	299-306	8
β-strand	311	1	4
β-strand	312	1	5
β-strand	320-323	4	4
β-strand	326-328	3	7
α-helix	337-345	9
β-strand	348-349	2	9
β-strand	350-351	2	7
β-strand	352	1	10
α-helix	355-358	4
β-strand	365	1	10
β-strand	367	1	11
β-strand	370	1	11
β-strand	371-372	2	9
α-helix	375-378	4
α-helix	381-398	18
α-helix	402-405	4
α-helix	412-428	17
α-helix	438-449	12
α-helix	458-475	18
α-helix	477-486	10
α-helix	491-506	16

Chain b: 7 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	2-6	5
β-strand	8	1	49
β-strand	12-13	2	50
β-strand	17-18	2	50
α-helix	19-29	11
α-helix	33-47	15
α-helix	52-53	2
α-helix	55-120	66
α-helix	123-184	62
α-helix	190-208	19

Chain B: 22 helices, 30 β-strands

Element	Residues	Length	Sheet
β-strand	28-33	6	12
β-strand	38-43	6	12
α-helix	47	1
β-strand	48	1	13
β-strand	51-55	5	12
β-strand	60-66	7	12
β-strand	71-75	5	12
α-helix	79-81	3
β-strand	87-94	8	12
β-strand	96-99	4	14
α-helix	101-103	3
β-strand	107-108	2	15
β-strand	114	1	15
β-strand	125-128	4	14
α-helix	131-134	4
β-strand	139	1	16
β-strand	145	1	17
α-helix	151-156	6
β-strand	160	1	17
β-strand	164	1	15
β-strand	166-169	4	15
α-helix	175-185	11
α-helix	187-190	4
β-strand	199-206	8	15
α-helix	210-222	13
β-strand	229-234	6	15
α-helix	240-259	20
β-strand	263-269	7	15
α-helix	271-284	14
α-helix	291-293	3
α-helix	298-306	9
β-strand	311	1	15
β-strand	312	1	16
β-strand	320-323	4	15
β-strand	326-328	3	15
β-strand	330	1	18
β-strand	333	1	18
α-helix	337-345	9
β-strand	348	1	19
β-strand	349-351	3	15
β-strand	352	1	20
α-helix	354-359	6
β-strand	365	1	20
β-strand	372	1	19
α-helix	375-378	4
α-helix	381-398	18
α-helix	412-427	16
α-helix	438-449	12
α-helix	458-460	3
α-helix	461-474	14
α-helix	477-486	10
α-helix	491-506	16

Chain C: 23 helices, 28 β-strands

Element	Residues	Length	Sheet
α-helix	7-17	11
β-strand	26-27	2	21
β-strand	29-35	7	1
β-strand	38-43	6	1
β-strand	51-55	5	1
β-strand	60-66	7	1
β-strand	71-75	5	1
β-strand	87-94	8	1
β-strand	96-99	4	22
α-helix	101-103	3
β-strand	107-108	2	23
β-strand	114	1	23
β-strand	125-128	4	22
α-helix	132-134	3
β-strand	139	1	24
β-strand	145	1	25
α-helix	151-156	6
β-strand	160	1	25
β-strand	164	1	23
β-strand	167-169	3	23
α-helix	175-185	11
α-helix	187-191	5
β-strand	199-206	8	23
α-helix	210-222	13
β-strand	229-234	6	23
α-helix	240-243	4
α-helix	246-259	14
β-strand	263-269	7	23
α-helix	271-284	14
α-helix	291-293	3
α-helix	298-306	9
β-strand	311	1	23
β-strand	312	1	24
α-helix	314-316	3
β-strand	320-323	4	23
β-strand	326-328	3	23
α-helix	337-345	9
β-strand	349	1	26
β-strand	350-351	2	23
β-strand	352	1	27
α-helix	354-358	5
β-strand	365	1	27
β-strand	371	1	26
α-helix	381-399	19
α-helix	412-428	17
α-helix	438-449	12
α-helix	453-455	3
α-helix	458-460	3
α-helix	461-475	15
α-helix	477-486	10
α-helix	491-506	16

Chain d: 13 helices, 1 β-strand

Element	Residues	Length	Sheet
α-helix	7-9	3
α-helix	12-15	4
α-helix	16-18	3
α-helix	21-23	3
α-helix	24-43	20
α-helix	53-58	6
α-helix	63-75	13
α-helix	84-86	3
α-helix	89-96	8
α-helix	97-102	6
α-helix	103-122	20
α-helix	127-129	3
β-strand	131	1	48
α-helix	132-138	7

Chain D: 24 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	10-17	8	1
β-strand	20-25	6	1
α-helix	29-31	3
β-strand	35-38	4	1
β-strand	46-54	9	1
β-strand	57-62	6	1
β-strand	74-77	4	1
β-strand	83-86	4	28
α-helix	88-90	3
β-strand	95	1	29
β-strand	101	1	29
β-strand	112-115	4	28
α-helix	119-122	4
α-helix	123-125	3
β-strand	126	1	30
β-strand	132-133	2	31
α-helix	138-143	6
β-strand	146-147	2	31
β-strand	151-156	6	32
α-helix	162-169	8
α-helix	170-174	5
β-strand	182-186	5	32
α-helix	190-203	14
β-strand	216-220	5	32
α-helix	226-245	20
β-strand	250-256	7	32
α-helix	259-269	11
α-helix	270-272	3
α-helix	274-276	3
α-helix	285-293	9
β-strand	299	1	30
β-strand	303-311	9	32
α-helix	313-315	3
α-helix	320-325	6
α-helix	326-328	3
β-strand	331-332	2	32
β-strand	335	1	33
α-helix	337-340	4
β-strand	348	1	33
β-strand	354	1	32
α-helix	365-388	24
α-helix	393-395	3
α-helix	400-413	14
α-helix	422-425	4
α-helix	434-446	13
α-helix	454-457	4
α-helix	463-475	13

21 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
ATP synthase protein 8	8	protein	66	Bos taurus	P03929 (AlphaFold model)
ATP synthase subunit alpha, mitochondrial	A, B, C	protein	510	Bos taurus	P19483 (AlphaFold model)
ATP synthase subunit beta, mitochondrial	D, E, F	protein	482	Bos taurus	P00829 (AlphaFold model)
ATP synthase subunit gamma, mitochondrial	G	protein	273	Bos taurus	P05631 (AlphaFold model)
ATP synthase subunit delta, mitochondrial	H	protein	146	Bos taurus	P05630
ATP synthase subunit epsilon, mitochondrial	I	protein	50	Bos taurus	P05632
ATPase inhibitor, mitochondrial	J	protein	66	Bos taurus	P01096
ATP synthase F(0) complex subunit C1, mitochondrial	K, L, M, N, O, P, Q, R	protein	75	Bos taurus	P32876
ATP synthase subunit O, mitochondrial	S	protein	190	Bos taurus	P13621
ATP synthase subunit a	a	protein	226	Bos taurus	P00847
ATP synthase F(0) complex subunit B1, mitochondrial	b	protein	214	Bos taurus	P13619
ATP synthase subunit d, mitochondrial	d	protein	160	Bos taurus	P13620

6 more molecules are not listed.

Sequence of entity 1 (8), FASTA

>6ZPO_1 ATP synthase protein 8 (chains 8)
MPQLDTSTWLTMILSMFLTLFIIFQLKVSKHNFYHNPELTPTKMLKQNTPWETKWTKIYL
PLLLPL

Sequence of entity 2 (A, B, C), FASTA

>6ZPO_2 ATP synthase subunit alpha, mitochondrial (chains A, B, C)
EKTGTAEVSSILEERILGADTSVDLEETGRVLSIGDGIARVHGLRNVQAEEMVEFSSGLK
GMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGP
IGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAI
DTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAA
PLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFY
LHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG
IRPAINVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSR
GVRLTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFENAFLSHVISQHQALL
SKIRTDGKISEESDAKLKEIVTNFLAGFEA

Sequence of entity 3 (D, E, F), FASTA

>6ZPO_3 ATP synthase subunit beta, mitochondrial (chains D, E, F)
AAQASPSPKAGATTGRIVAVIGAVVDVQFDEGLPPILNALEVQGRETRLVLEVAQHLGES
TVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAI
HAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKA
HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTG
LTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERI
TTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSR
IMDPNIVGSEHYDVARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVSRARKIQRFLSQ
PFQVAEVFTGHLGKLVPLKETIKGFQQILAGEYDHLPEQAFYMVGPIEEAVAKADKLAEE
HS

Sequence of entity 4 (G), FASTA

>6ZPO_4 ATP synthase subunit gamma, mitochondrial (chains G)
ATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGVGSLALYEKADIKTP
EDKKKHLIIGVSSDRGLCGAIHSSVAKQMKSEAANLAAAGKEVKIIGVGDKIRSILHRTH
SDQFLVTFKEVGRRPPTFGDASVIALELLNSGYEFDEGSIIFNRFRSVISYKTEEKPIFS
LDTISSAESMSIYDDIDADVLRNYQEYSLANIIYYSLKESTTSEQSARMTAMDNASKNAS
EMIDKLTLTFNRTRQAVITKELIEIISGAAALD

Sequence of entity 5 (H), FASTA

>6ZPO_5 ATP synthase subunit delta, mitochondrial (chains H)
AEAAAAQAPAAGPGQMSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRP
GLVVVHAEDGTTSKYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELL
GAADEATRAEIQIRIEANEALVKALE

Sequence of entity 6 (I), FASTA

>6ZPO_6 ATP synthase subunit epsilon, mitochondrial (chains I)
VAYWRQAGLSYIRYSQICAKAVRDALKTEFKANAMKTSGSTIKIVKVKKE

Sequence of entity 7 (J), FASTA

>6ZPO_7 ATPase inhibitor, mitochondrial (chains J)
GSESGDNVRSSAGAVRDAGGAFGKREQAEEERYFRARAKEQLAALKKHHENEISHHAKEI
HHHHHH

Sequence of entity 8 (K, L, M, N, O, P, Q, R), FASTA

>6ZPO_8 ATP synthase F(0) complex subunit C1, mitochondrial (chains K, L, M, N, O, P, Q, R)
DIDTAAKFIGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAM
GLFCLMVAFLILFAM

Sequence of entity 9 (S), FASTA

>6ZPO_9 ATP synthase subunit O, mitochondrial (chains S)
FAKLVRPPVQIYGIEGRYATALYSAASKQNKLEQVEKELLRVGQILKEPKMAASLLNPYV
KRSVKVKSLSDMTAKEKFSPLTSNLINLLAENGRLTNTPAVISAFSTMMSVHRGEVPCTV
TTASALDEATLTELKTVLKSFLSKGQVLKLEVKIDPSIMGGMIVRIGEKYVDMSAKTKIQ
KLSRAMREIL

Sequence of entity 10 (a), FASTA

>6ZPO_10 ATP synthase subunit a (chains a)
MNENLFTSFITPVILGLPLVTLIVLFPSLLFPTSNRLVSNRFVTLQQWMLQLVSKQMMSI
HNSKGQTWTLMLMSLILFIGSTNLLGLLPHSFTPTTQLSMNLGMAIPLWAGAVITGFRNK
TKASLAHFLPQGTPTPLIPMLVIIETISLFIQPMALAVRLTANITAGHLLIHLIGGATLA
LMSISTTTALITFTILILLTILEFAVAMIQAYVFTLLVSLYLHDNT

Sequence of entity 11 (b), FASTA

>6ZPO_11 ATP synthase F(0) complex subunit B1, mitochondrial (chains b)
PVPPLPEHGGKVRFGLIPEEFFQFLYPKTGVTGPYVLGTGLILYLLSKEIYVITPETFSA
ISTIGFLVYIVKKYGASVGEFADKLNEQKIAQLEEVKQASIKQIQDAIDMEKSQQALVQK
RHYLFDVQRNNIAMALEVTYRERLHRVYREVKNRLDYHISVQNMMRQKEQEHMINWVEKR
VVQSISAQQEKETIAKCIADLKLLSKKAQAQPVM

Sequence of entity 12 (d), FASTA

>6ZPO_12 ATP synthase subunit d, mitochondrial (chains d)
AGRKLALKTIDWVAFGEIIPRNQKAVANSLKSWNETLTSRLATLPEKPPAIDWAYYKANV
AKAGLVDDFEKKFNALKVPIPEDKYTAQVDAEEKEDVKSCAEFLTQSKTRIQEYEKELEK
MRNIIPFDQMTIEDLNEVFPETKLDKKKYPYWPHRPIETL

Ligands and cofactors

ID	Name	Formula	Copies
LHG	1,2-dipalmitoyl-phosphatidyl-glycerole	C38 H75 O10 P	2
CDL	Cardiolipin	C81 H156 O17 P2	3
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	3
MG	Magnesium ion	Mg	5
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	3

Primary citation

Structure of the dimeric ATP synthase from bovine mitochondria. Spikes, T.E., Montgomery, M.G., Walker, J.E. Proc Natl Acad Sci U S A (2020) 117:23519-23526. DOI 10.1073/pnas.2013998117 · PubMed

Other PDB entries of the same protein (UniProt P03929 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6ZQM 3.29 Å, bovine ATP synthase monomer state 2 (combined)
9W2R 3.4 Å, Cryo-EM structure of FoF1-ATPase monomer state 1 on the bovine heart submitochondrial…
6ZIT 3.49 Å, bovine ATP synthase Stator domain, state 2
6ZBB 3.61 Å, bovine ATP synthase Fo domain
6ZQN 4.0 Å, bovine ATP synthase monomer state 3 (combined)
9W2S 4.0 Å, Cryo-EM structure of FoF1-ATPase monomer state 3 on the bovine heart submitochondrial…
9W2T 4.1 Å, Cryo-EM structure of Fo domain of FoF1-ATPase monomer state on the bovine heart…
6ZIQ 4.33 Å, bovine ATP synthase stator domain, state 1
9VPB 5.0 Å, Cryo-EM structure of the IF1 bound bovine F-ATP synthase planar dimer
6ZIU 6.02 Å, bovine ATP synthase stator domain, state 3
9VPC 7.2 Å, Cryo-EM structure of the IF1 bound bovine ATP synthase tetramer
7AJF 8.45 Å, bovine ATP synthase dimer state2:state2

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