9ZB4 | pdb_00009zb4

Cryo-EM structure of Leishmania tarentolae respiratory complex V (ATP synthase) membrane region

PDB DOI: https://doi.org/10.2210/pdb9ZB4/pdb
EM Map EMD-73974: EMDB EMDataResource

Classification: ELECTRON TRANSPORT
Organism(s): Leishmania tarentolae
Mutation(s): No

Deposited: 2025-11-20 Released: 2026-10-07
Deposition Author(s): Liao, Y.T., Chao, L.
Funding Organization(s): Howard Hughes Medical Institute (HHMI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.73 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Conserved and divergent mitochondrial assemblies in kinetoplastid parasites

Solayman, M., Liao, Y.T., Calvo, S.E., Vacas, A.F., Papanastasiou, M., Rivera, K.D., Mani, D., Boyle, B.W., Deng, F.G., Betsinger, C.N., Carr, S.A., Chen, M.Z., Duraisingh, M.T., Fry, M.Y., Goyal, M., Issa, T.M., Kim, M., Lian, C.G., Luce, B.E., Mian, S.Y., Nguyen, K., Paul, A.S., Samuelson, J., Stefely, J.A., Udeshi, N.D., Mootha, V.K., Aphasizheva, I., Chao, L.H., Aphasizhev, R.

(2026) Mol Cell 86: 4043

DOI: https://doi.org/10.1016/j.molcel.2026.08.031

Macromolecule Content

Total Structure Weight: 586.09 kDa
Atom Count: 41,236
Modeled Residue Count: 5,124
Deposited Residue Count: 5,124
Unique protein chains: 15

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LtaP27_632926_633111, LtATPEG4	A [auth o], VA [auth O]	55	Leishmania tarentolae	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
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Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit c-1	B [auth x] C [auth c] D [auth p] E [auth q] F [auth r] B [auth x], C [auth c], D [auth p], E [auth q], F [auth r], G [auth s], H [auth y], I [auth u], IA [auth X], J [auth v], JA [auth C], K [auth w], KA [auth P], LA [auth Q], MA [auth R], NA [auth S], OA [auth Y], PA [auth U], QA [auth V], RA [auth W]	76	Leishmania tarentolae	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
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Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
ATPase 6	L [auth l], Y [auth L]	231	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for Q33561 (Leishmania tarentolae) Explore Q33561 Go to UniProtKB: Q33561
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q33561
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Reference Sequence

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit i/j	M [auth b], Z [auth B]	102	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640K7R8 (Leishmania tarentolae) Explore A0A640K7R8 Go to UniProtKB: A0A640K7R8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640K7R8
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Reference Sequence

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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit ATPTB1	N [auth d], SA [auth D]	384	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KLU7 (Leishmania tarentolae) Explore A0A640KLU7 Go to UniProtKB: A0A640KLU7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KLU7
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Reference Sequence

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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit ATPTB6	AA [auth H], O [auth h]	163	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KJ33 (Leishmania tarentolae) Explore A0A640KJ33 Go to UniProtKB: A0A640KJ33
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KJ33
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Reference Sequence

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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit g	BA [auth I], P [auth i]	127	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KX01 (Leishmania tarentolae) Explore A0A640KX01 Go to UniProtKB: A0A640KX01
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KX01
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Reference Sequence

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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit f	CA [auth E], Q [auth e]	123	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KHR7 (Leishmania tarentolae) Explore A0A640KHR7 Go to UniProtKB: A0A640KHR7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KHR7
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Reference Sequence

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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit 8	DA [auth J], R [auth j]	66	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KSU1 (Leishmania tarentolae) Explore A0A640KSU1 Go to UniProtKB: A0A640KSU1
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UniProt Group	A0A640KSU1
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Reference Sequence

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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit b	EA [auth K], S [auth k]	75	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KSG2 (Leishmania tarentolae) Explore A0A640KSG2 Go to UniProtKB: A0A640KSG2
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KSG2
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Reference Sequence

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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit e	FA [auth M], T [auth m]	59	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KHE9 (Leishmania tarentolae) Explore A0A640KHE9 Go to UniProtKB: A0A640KHE9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KHE9
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Reference Sequence

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Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit k	TA [auth G], U [auth g]	104	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KJQ9 (Leishmania tarentolae) Explore A0A640KJQ9 Go to UniProtKB: A0A640KJQ9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KJQ9
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Reference Sequence

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Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit ATPTB12	GA [auth A], V [auth a]	99	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KES0 (Leishmania tarentolae) Explore A0A640KES0 Go to UniProtKB: A0A640KES0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KES0
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Reference Sequence

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Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit ATPTB11	HA [auth F], W [auth f]	136	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KHW7 (Leishmania tarentolae) Explore A0A640KHW7 Go to UniProtKB: A0A640KHW7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KHW7
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Reference Sequence

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Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial ATP synthase subunit ATPEG3	UA [auth N], X [auth n]	78	Leishmania tarentolae	Mutation(s): 0
UniProt
Find proteins for A0A640KG00 (Leishmania tarentolae) Explore A0A640KG00 Go to UniProtKB: A0A640KG00
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A640KG00
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.73 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.7
MODEL REFINEMENT	PHENIX	1.21.2_5419

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-07

Deposition Author(s):

Liao, Y.T.

Chao, L.

Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-10-07
Type: Initial release

9ZB4 | pdb_00009zb4

Cryo-EM structure of Leishmania tarentolae respiratory complex V (ATP synthase) membrane region

Literature

Conserved and divergent mitochondrial assemblies in kinetoplastid parasites

Biological Assembly 1

Macromolecules

Entity ID: 1

Entity Groups

Sequence Annotations

Entity ID: 2

Entity Groups

Sequence Annotations

Entity ID: 3

UniProt

Entity Groups

Sequence Annotations

Entity ID: 4

UniProt

Entity Groups

Sequence Annotations

Entity ID: 5

UniProt

Entity Groups

Sequence Annotations

Entity ID: 6

UniProt

Entity Groups

Sequence Annotations

Entity ID: 7

UniProt

Entity Groups

Sequence Annotations

Entity ID: 8

UniProt

Entity Groups

Sequence Annotations

Entity ID: 9

UniProt

Entity Groups

Sequence Annotations

Entity ID: 10

UniProt

Entity Groups

Sequence Annotations

Entity ID: 11

UniProt

Entity Groups

Sequence Annotations

Entity ID: 12

UniProt

Entity Groups

Sequence Annotations

Entity ID: 13

UniProt

Entity Groups

Sequence Annotations

Entity ID: 14

UniProt

Entity Groups

Sequence Annotations

Entity ID: 15

UniProt

Entity Groups

Sequence Annotations

Experimental Data & Validation

Experimental Data

Structure Validation

Entry History

Deposition Data

Revision History (Full details and data files)