7ANE | pdb_00007ane

Leishmania Major mitochondrial ribosome

PDB DOI: https://doi.org/10.2210/pdb7ANE/pdb
EM Map EMD-11829: EMDB EMDataResource
NAKB: 7ANE

Classification: RIBOSOME
Organism(s): Leishmania major
Mutation(s): No

Deposited: 2020-10-11 Released: 2021-06-23
Deposition Author(s): Soufari, H., Waltz, F., Parrot, C., Bochler, A., Hashem, Y.
Funding Organization(s): European Research Council (ERC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.90 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Structure of the mature kinetoplastids mitoribosome and insights into its large subunit biogenesis.

Soufari, H., Waltz, F., Parrot, C., Durrieu-Gaillard, S., Bochler, A., Kuhn, L., Sissler, M., Hashem, Y.

(2020) Proc Natl Acad Sci U S A 117: 29851-29861

PubMed: 33168716 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1073/pnas.2011301117
Primary Citation Related Structures:
7AIH, 7AM2, 7ANE, 7AOR

PubMed Abstract:
Kinetoplastids are unicellular eukaryotic parasites responsible for such human pathologies as Chagas disease, sleeping sickness, and leishmaniasis. They have a single large mitochondrion, essential for the parasite survival. In kinetoplastid mitochondria, most of the molecular machineries and gene expression processes have significantly diverged and specialized, with an extreme example being their mitochondrial ribosomes. These large complexes are in charge of translating the few essential mRNAs encoded by mitochondrial genomes. Structural studies performed in Trypanosoma brucei already highlighted the numerous peculiarities of these mitoribosomes and the maturation of their small subunit. However, several important aspects mainly related to the large subunit (LSU) remain elusive, such as the structure and maturation of its ribosomal RNA. Here we present a cryo-electron microscopy study of the protozoans Leishmania tarentolae and Trypanosoma cruzi mitoribosomes. For both species, we obtained the structure of their mature mitoribosomes, complete rRNA of the LSU, as well as previously unidentified ribosomal proteins. In addition, we introduce the structure of an LSU assembly intermediate in the presence of 16 identified maturation factors. These maturation factors act on both the intersubunit and the solvent sides of the LSU, where they refold and chemically modify the rRNA and prevent early translation before full maturation of the LSU.

Organizational Affiliation

Institut Européen de Chimie et Biologie, U1212 INSERM, UMR5320 CNRS, Université de Bordeaux, F-33600 Pessac, France.

Macromolecule Content

Total Structure Weight: 16,803.41 kDa
Atom Count: 303,111
Modeled Residue Count: 34,881
Deposited Residue Count: 79,222
Unique protein chains: 122
Unique nucleic acid chains: 1

Macromolecules

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
uS14m	B [auth h]	166	Leishmania major	Mutation(s): 0
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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
mS69	C [auth aw]	139	Leishmania major	Mutation(s): 0
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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
bS18m	D [auth m]	325	Leishmania major	Mutation(s): 0
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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
uS11m	E [auth f]	371	Leishmania major	Mutation(s): 0
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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
mS33	F [auth s]	179	Leishmania major	Mutation(s): 0
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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Rhodanese domain-containing protein	G [auth au]	247	Leishmania major	Mutation(s): 0
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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
mS59	H [auth am]	313	Leishmania major	Mutation(s): 0
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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
uS19m	I [auth n]	171	Leishmania major	Mutation(s): 0
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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
mS53	J [auth ae]	655	Leishmania major	Mutation(s): 0
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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
mS71	K [auth ay]	169	Leishmania major	Mutation(s): 0
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Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
mS55	L [auth ag]	564	Leishmania major	Mutation(s): 0
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Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
mS57	M [auth aj]	397	Leishmania major	Mutation(s): 0
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Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
uS10m	N [auth e]	822	Leishmania major	Mutation(s): 0
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Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
uS9m	O [auth d]	351	Leishmania major	Mutation(s): 0
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Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
mS72	P [auth az]	163	Leishmania major	Mutation(s): 0
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Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details	Image
mS70	Q [auth ax]	184	Leishmania major	Mutation(s): 0
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Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details	Image
mS29	R [auth r]	467	Leishmania major	Mutation(s): 0
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Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details	Image
Excreted/secreted protein 15	S [auth af]	835	Leishmania major	Mutation(s): 0
UniProt
Find proteins for Q1X7J7 (Leishmania major) Explore Q1X7J7 Go to UniProtKB: Q1X7J7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q1X7J7
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Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details	Image
mS35	T [auth u]	890	Leishmania major	Mutation(s): 0
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Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details	Image
mS48	U [auth aa]	1,813	Leishmania major	Mutation(s): 0
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Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details	Image
mS49	V [auth ab]	1,177	Leishmania major	Mutation(s): 0
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Entity ID: 23
Molecule	Chains	Sequence Length	Organism	Details	Image
mS58	W [auth ak]	325	Leishmania major	Mutation(s): 0
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Entity ID: 24
Molecule	Chains	Sequence Length	Organism	Details	Image
mS50	X [auth ac]	1,267	Leishmania major	Mutation(s): 0
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Entity ID: 25
Molecule	Chains	Sequence Length	Organism	Details	Image
mS51	Y [auth ad]	811	Leishmania major	Mutation(s): 0
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Entity ID: 26
Molecule	Chains	Sequence Length	Organism	Details	Image
mS60	Z [auth an]	302	Leishmania major	Mutation(s): 0
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Entity ID: 27
Molecule	Chains	Sequence Length	Organism	Details	Image
mS61	AA [auth ao]	291	Leishmania major	Mutation(s): 0
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Entity ID: 28
Molecule	Chains	Sequence Length	Organism	Details	Image
mS62	BA [auth ap]	245	Leishmania major	Mutation(s): 0
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Entity ID: 29
Molecule	Chains	Sequence Length	Organism	Details	Image
mS63	CA [auth aq]	295	Leishmania major	Mutation(s): 0
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Entity ID: 30
Molecule	Chains	Sequence Length	Organism	Details	Image
mS65	DA [auth as]	270	Leishmania major	Mutation(s): 0
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Entity ID: 31
Molecule	Chains	Sequence Length	Organism	Details	Image
mS66	EA [auth at]	397	Leishmania major	Mutation(s): 0
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Entity ID: 32
Molecule	Chains	Sequence Length	Organism	Details	Image
mS43	FA [auth y]	485	Leishmania major	Mutation(s): 0
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Entity ID: 33
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein FYV4, mitochondrial	GA [auth w]	190	Leishmania major	Mutation(s): 0
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Entity ID: 34
Molecule	Chains	Sequence Length	Organism	Details	Image
mS37	HA [auth v]	214	Leishmania major	Mutation(s): 0
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Entity ID: 35
Molecule	Chains	Sequence Length	Organism	Details	Image
mS34	IA [auth t]	267	Leishmania major	Mutation(s): 0
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Entity ID: 36
Molecule	Chains	Sequence Length	Organism	Details	Image
mS23	JA [auth p]	321	Leishmania major	Mutation(s): 0
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Entity ID: 37
Molecule	Chains	Sequence Length	Organism	Details	Image
bS16m	KA [auth j]	189	Leishmania major	Mutation(s): 0
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Entity ID: 38
Molecule	Chains	Sequence Length	Organism	Details	Image
mS52	LA [auth l]	677	Leishmania major	Mutation(s): 0
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Entity ID: 39
Molecule	Chains	Sequence Length	Organism	Details	Image
AKAP7_NLS domain-containing protein	MA [auth ar]	282	Leishmania major	Mutation(s): 0
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Entity ID: 40
Molecule	Chains	Sequence Length	Organism	Details	Image
Ubiquitin-like domain-containing protein	NA [auth av]	236	Leishmania major	Mutation(s): 0
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Entity ID: 41
Molecule	Chains	Sequence Length	Organism	Details	Image
mS56	OA [auth ai]	379	Leishmania major	Mutation(s): 0
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Entity ID: 42
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative superoxide dismutase	PA [auth x]	268	Leishmania major	Mutation(s): 0 EC: 1.15.1.1
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Entity ID: 43
Molecule	Chains	Sequence Length	Organism	Details	Image
uS15m	QA [auth i]	429	Leishmania major	Mutation(s): 0
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Entity ID: 44
Molecule	Chains	Sequence Length	Organism	Details	Image
bS21m	RA [auth g]	192	Leishmania major	Mutation(s): 0
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Entity ID: 45
Molecule	Chains	Sequence Length	Organism	Details	Image
mS22	SA [auth o]	604	Leishmania major	Mutation(s): 0
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Entity ID: 46
Molecule	Chains	Sequence Length	Organism	Details	Image
uS8m	TA [auth c]	311	Leishmania major	Mutation(s): 0
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Entity ID: 47
Molecule	Chains	Sequence Length	Organism	Details	Image
30S Ribosomal protein S17-like protein	UA [auth k]	312	Leishmania major	Mutation(s): 0
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Entity ID: 48
Molecule	Chains	Sequence Length	Organism	Details	Image
mS26	VA [auth q]	425	Leishmania major	Mutation(s): 0
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Entity ID: 49
Molecule	Chains	Sequence Length	Organism	Details	Image
bS6m	WA [auth b]	159	Leishmania major	Mutation(s): 0
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Entity ID: 50
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal_S5_C domain-containing protein	XA [auth a]	431	Leishmania major	Mutation(s): 0
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Entity ID: 51
Molecule	Chains	Sequence Length	Organism	Details	Image
mS73	YA [auth ba]	94	Leishmania major	Mutation(s): 0
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Entity ID: 52
Molecule	Chains	Sequence Length	Organism	Details	Image
mS47	ZA [auth z]	1,169	Leishmania major	Mutation(s): 0
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Entity ID: 53
Molecule	Chains	Sequence Length	Organism	Details	Image
uS3m	AB [auth bd]	89	Leishmania major	Mutation(s): 0
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Entity ID: 54
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal protein L3-like protein	BB [auth A]	466	Leishmania major	Mutation(s): 0
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Entity ID: 55
Molecule	Chains	Sequence Length	Organism	Details	Image
uL4m	CB [auth B]	435	Leishmania major	Mutation(s): 0
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Entity ID: 56
Molecule	Chains	Sequence Length	Organism	Details	Image
RIBOSOMAL_L9 domain-containing protein	DB [auth C]	261	Leishmania major	Mutation(s): 0
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Entity ID: 57
Molecule	Chains	Sequence Length	Organism	Details	Image
uL10m	EB [auth D]	204	Leishmania major	Mutation(s): 0
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Entity ID: 58
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative ribosomal protein L11	FB [auth E]	345	Leishmania major	Mutation(s): 0
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Entity ID: 59
Molecule	Chains	Sequence Length	Organism	Details	Image
50S ribosomal protein L13-like protein	GB [auth F]	171	Leishmania major	Mutation(s): 0
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Entity ID: 60
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal_L18e/L15P domain-containing protein	HB [auth G]	373	Leishmania major	Mutation(s): 0
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Entity ID: 61
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal_L16 domain-containing protein	IB [auth H]	167	Leishmania major	Mutation(s): 0
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Entity ID: 62
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative 50S ribosomal protein L17	JB [auth I]	304	Leishmania major	Mutation(s): 0
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Entity ID: 63
Molecule	Chains	Sequence Length	Organism	Details	Image
bL19m	KB [auth J]	143	Leishmania major	Mutation(s): 0
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Entity ID: 64
Molecule	Chains	Sequence Length	Organism	Details	Image
bL20m	LB [auth K]	193	Leishmania major	Mutation(s): 0
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Entity ID: 65
Molecule	Chains	Sequence Length	Organism	Details	Image
bL21m	MB [auth L]	185	Leishmania major	Mutation(s): 0
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Entity ID: 66
Molecule	Chains	Sequence Length	Organism	Details	Image
uL22m	NB [auth M]	278	Leishmania major	Mutation(s): 0
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Entity ID: 67
Molecule	Chains	Sequence Length	Organism	Details	Image
uL23m	OB [auth N]	251	Leishmania major	Mutation(s): 0
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Entity ID: 68
Molecule	Chains	Sequence Length	Organism	Details	Image
uL24m	PB [auth O]	475	Leishmania major	Mutation(s): 0
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Entity ID: 69
Molecule	Chains	Sequence Length	Organism	Details	Image
bL27m	QB [auth P]	184	Leishmania major	Mutation(s): 0
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Entity ID: 70
Molecule	Chains	Sequence Length	Organism	Details	Image
bL28m	RB [auth Q]	233	Leishmania major	Mutation(s): 0
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Entity ID: 71
Molecule	Chains	Sequence Length	Organism	Details	Image
uL29m	SB [auth R]	479	Leishmania major	Mutation(s): 0
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Entity ID: 72
Molecule	Chains	Sequence Length	Organism	Details	Image
uL30m	TB [auth S]	408	Leishmania major	Mutation(s): 0
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Entity ID: 73
Molecule	Chains	Sequence Length	Organism	Details	Image
bL32m	UB [auth T]	82	Leishmania major	Mutation(s): 0
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Entity ID: 74
Molecule	Chains	Sequence Length	Organism	Details	Image
bL33m	VB [auth U]	117	Leishmania major	Mutation(s): 0
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Entity ID: 75
Molecule	Chains	Sequence Length	Organism	Details	Image
bL35m	WB [auth V]	150	Leishmania major	Mutation(s): 0
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Entity ID: 76
Molecule	Chains	Sequence Length	Organism	Details	Image
bL36m	XB [auth W]	185	Leishmania major	Mutation(s): 0
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Entity ID: 77
Molecule	Chains	Sequence Length	Organism	Details	Image
mL38	YB [auth X]	512	Leishmania major	Mutation(s): 0
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Entity ID: 78
Molecule	Chains	Sequence Length	Organism	Details	Image
mL40	ZB [auth Y]	292	Leishmania major	Mutation(s): 0
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Entity ID: 79
Molecule	Chains	Sequence Length	Organism	Details	Image
mL41	AC [auth Z]	197	Leishmania major	Mutation(s): 0
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Entity ID: 80
Molecule	Chains	Sequence Length	Organism	Details	Image
mL94	BC [auth BA]	167	Leishmania major	Mutation(s): 0
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Entity ID: 81
Molecule	Chains	Sequence Length	Organism	Details	Image
UA	CC [auth UA]	203	Leishmania major	Mutation(s): 0
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Entity ID: 82
Molecule	Chains	Sequence Length	Organism	Details	Image
mL95	DC [auth BB]	156	Leishmania major	Mutation(s): 0
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Entity ID: 83
Molecule	Chains	Sequence Length	Organism	Details	Image
mL89	EC [auth Aw]	187	Leishmania major	Mutation(s): 0
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Entity ID: 84
Molecule	Chains	Sequence Length	Organism	Details	Image
bL31m	FC [auth Bj]	185	Leishmania major	Mutation(s): 0
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Entity ID: 85
Molecule	Chains	Sequence Length	Organism	Details	Image
mL76	GC [auth An]	331	Leishmania major	Mutation(s): 0
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Entity ID: 86
Molecule	Chains	Sequence Length	Organism	Details	Image
mL74	HC [auth Al]	346	Leishmania major	Mutation(s): 0
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Entity ID: 87
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-prolyl cis-trans isomerase	IC [auth BI]	266	Leishmania major	Mutation(s): 0 EC: 5.2.1.8
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Entity ID: 88
Molecule	Chains	Sequence Length	Organism	Details	Image
mL93	JC [auth Az]	152	Leishmania major	Mutation(s): 0
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Entity ID: 89
Molecule	Chains	Sequence Length	Organism	Details	Image
mL86	KC [auth At]	183	Leishmania major	Mutation(s): 0
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Entity ID: 90
Molecule	Chains	Sequence Length	Organism	Details	Image
mL96	LC [auth BC]	147	Leishmania major	Mutation(s): 0
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Entity ID: 91
Molecule	Chains	Sequence Length	Organism	Details	Image
L51_S25_CI-B8 domain-containing protein	MC [auth Ab]	262	Leishmania major	Mutation(s): 0
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Entity ID: 92
Molecule	Chains	Sequence Length	Organism	Details	Image
mL69	NC [auth Ai]	479	Leishmania major	Mutation(s): 0
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Entity ID: 93
Molecule	Chains	Sequence Length	Organism	Details	Image
mL80	OC [auth Ap]	240	Leishmania major	Mutation(s): 0
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Entity ID: 94
Molecule	Chains	Sequence Length	Organism	Details	Image
mL87	PC [auth Au]	186	Leishmania major	Mutation(s): 0
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Entity ID: 95
Molecule	Chains	Sequence Length	Organism	Details	Image
mL42	QC [auth Aa]	195	Leishmania major	Mutation(s): 0
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Entity ID: 96
Molecule	Chains	Sequence Length	Organism	Details	Image
mL79	RC [auth Ao]	284	Leishmania major	Mutation(s): 0
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Entity ID: 97
Molecule	Chains	Sequence Length	Organism	Details	Image
mL70	SC [auth BM]	457	Leishmania major	Mutation(s): 0
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Entity ID: 98
Molecule	Chains	Sequence Length	Organism	Details	Image
mL84	TC [auth Ar]	205	Leishmania major	Mutation(s): 0
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Entity ID: 99
Molecule	Chains	Sequence Length	Organism	Details	Image
mL72	UC [auth Aj]	503	Leishmania major	Mutation(s): 0
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Entity ID: 100
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-prolyl cis-trans isomerase	VC [auth BH]	229	Leishmania major	Mutation(s): 0 EC: 5.2.1.8
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Entity ID: 101
Molecule	Chains	Sequence Length	Organism	Details	Image
mL75	WC [auth Am]	340	Leishmania major	Mutation(s): 0
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Entity ID: 102
Molecule	Chains	Sequence Length	Organism	Details	Image
mL82	XC [auth Aq]	341	Leishmania major	Mutation(s): 0
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Entity ID: 103
Molecule	Chains	Sequence Length	Organism	Details	Image
mL98	YC [auth BE]	118	Leishmania major	Mutation(s): 0
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Entity ID: 104
Molecule	Chains	Sequence Length	Organism	Details	Image
mL73	ZC [auth Ak]	323	Leishmania major	Mutation(s): 0
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Entity ID: 105
Molecule	Chains	Sequence Length	Organism	Details	Image
mL52	AD [auth BP]	254	Leishmania major	Mutation(s): 0
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Entity ID: 106
Molecule	Chains	Sequence Length	Organism	Details	Image
mL49	BD [auth Ad]	237	Leishmania major	Mutation(s): 0
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Entity ID: 107
Molecule	Chains	Sequence Length	Organism	Details	Image
mL99	CD [auth BF]	109	Leishmania major	Mutation(s): 0
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Entity ID: 108
Molecule	Chains	Sequence Length	Organism	Details	Image
mL88	DD [auth Av]	192	Leishmania major	Mutation(s): 0
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Entity ID: 109
Molecule	Chains	Sequence Length	Organism	Details	Image
mL63	ED [auth Af]	155	Leishmania major	Mutation(s): 0
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Entity ID: 110
Molecule	Chains	Sequence Length	Organism	Details	Image
mL85	FD [auth As]	249	Leishmania major	Mutation(s): 0
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Entity ID: 111
Molecule	Chains	Sequence Length	Organism	Details	Image
mL53	GD [auth Ae]	311	Leishmania major	Mutation(s): 0
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Entity ID: 112
Molecule	Chains	Sequence Length	Organism	Details	Image
MRP-L46 domain-containing protein	HD [auth Ac]	291	Leishmania major	Mutation(s): 0
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Entity ID: 113
Molecule	Chains	Sequence Length	Organism	Details	Image
mL68	ID [auth Ah]	570	Leishmania major	Mutation(s): 0
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Entity ID: 114
Molecule	Chains	Sequence Length	Organism	Details	Image
mL97	JD [auth BD]	102	Leishmania major	Mutation(s): 0
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Entity ID: 115
Molecule	Chains	Sequence Length	Organism	Details	Image
C2H2-type domain-containing protein	KD [auth Ay]	174	Leishmania major	Mutation(s): 0
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Entity ID: 116
Molecule	Chains	Sequence Length	Organism	Details	Image
mL59/64	LD [auth Ag]	244	Leishmania major	Mutation(s): 0
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Entity ID: 117
Molecule	Chains	Sequence Length	Organism	Details	Image
LIM zinc-binding domain-containing protein	MD [auth Ax]	216	Leishmania major	Mutation(s): 0
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Entity ID: 118
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative ribosomal protein L2	ND [auth BL]	380	Leishmania major	Mutation(s): 0
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Entity ID: 119
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative ribosomal protein L14	OD [auth BO]	190	Leishmania major	Mutation(s): 0
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Entity ID: 120
Molecule	Chains	Sequence Length	Organism	Details	Image
mL100	PD [auth BG]	1,347	Leishmania major	Mutation(s): 0
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Entity ID: 121
Molecule	Chains	Sequence Length	Organism	Details	Image
UB	QD [auth UB]	67	Leishmania major	Mutation(s): 0
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Entity ID: 122
Molecule	Chains	Sequence Length	Organism	Details	Image
UC	RD [auth UC]	144	Leishmania major	Mutation(s): 0
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Entity ID: 123
Molecule	Chains	Sequence Length	Organism	Details	Image
UD	SD [auth UD]	95	Leishmania major	Mutation(s): 0
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Molecule	Chains	Length	Organism
Entity ID: 1
Large ribosomal RNA	A [auth 2], TD [auth 1]	18,998	Leishmania major
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Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAD Query on NAD Download:Ideal Coordinates CCD File SDF format, chain XD [auth Ag] MOL2 format, chain XD [auth Ag] mmCIF format, chain XD [auth Ag]	XD [auth Ag]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C₂₁ H₂₇ N₇ O₁₄ P₂ BAWFJGJZGIEFAR-NNYOXOHSSA-N		Interactions Focus chain XD [auth Ag] Interactions & Density Focus chain XD [auth Ag]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain ZD [auth Ax] SDF format, chain YD [auth Ax] SDF format, chain WD [auth BD] SDF format, chain VD [auth W] SDF format, chain UD [auth T] SDF format, chain AE [auth BG] MOL2 format, chain ZD [auth Ax] MOL2 format, chain YD [auth Ax] MOL2 format, chain WD [auth BD] MOL2 format, chain VD [auth W] MOL2 format, chain UD [auth T] MOL2 format, chain AE [auth BG] mmCIF format, chain ZD [auth Ax] mmCIF format, chain YD [auth Ax] mmCIF format, chain WD [auth BD] mmCIF format, chain VD [auth W] mmCIF format, chain UD [auth T] mmCIF format, chain AE [auth BG]	AE [auth BG] UD [auth T] VD [auth W] WD [auth BD] YD [auth Ax] AE [auth BG], UD [auth T], VD [auth W], WD [auth BD], YD [auth Ax], ZD [auth Ax]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain AE [auth BG] Focus chain UD [auth T] Focus chain VD [auth W] Focus chain WD [auth BD] Focus chain YD [auth Ax] Focus chain ZD [auth Ax] Interactions & Density Focus chain AE [auth BG] Focus chain UD [auth T] Focus chain VD [auth W] Focus chain WD [auth BD] Focus chain YD [auth Ax] Focus chain ZD [auth Ax]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain CE [auth 1] SDF format, chain BE [auth 1] MOL2 format, chain CE [auth 1] MOL2 format, chain BE [auth 1] mmCIF format, chain CE [auth 1] mmCIF format, chain BE [auth 1]	BE [auth 1], CE [auth 1]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain BE [auth 1] Focus chain CE [auth 1] Interactions & Density Focus chain BE [auth 1] Focus chain CE [auth 1]

Non-standard Monomers 1 Unique
ID	Chains	Type	Formula	2D Diagram
UNK Query on UNK	CC [auth UA], QD [auth UB], RD [auth UC], SD [auth UD]	L-PEPTIDE LINKING	C₄ H₉ N O₂

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.90 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2021-06-23

Deposition Author(s):

Funding Organization	Location	Grant Number
European Research Council (ERC)	France	--

Revision History (Full details and data files)

Version 1.0: 2021-06-23
Type: Initial release
Version 1.1: 2025-04-09
Changes: Data collection, Database references, Structure summary
Version 1.2: 2025-10-01
Changes: Advisory, Data collection, Derived calculations, Structure summary
Version 1.3: 2025-12-17
Changes: Data collection

7ANE | pdb_00007ane

Leishmania Major mitochondrial ribosome

Literature

Structure of the mature kinetoplastids mitoribosome and insights into its large subunit biogenesis.

Biological Assembly 1

Macromolecules

Entity ID: 2

Entity Groups

Sequence Annotations

Entity ID: 3

Entity Groups

Sequence Annotations

Entity ID: 4

Entity Groups

Sequence Annotations

Entity ID: 5

Entity Groups

Sequence Annotations

Entity ID: 6

Entity Groups

Sequence Annotations

Entity ID: 7

Entity Groups

Sequence Annotations

Entity ID: 8

Entity Groups

Sequence Annotations

Entity ID: 9

Entity Groups

Sequence Annotations

Entity ID: 10

Entity Groups

Sequence Annotations

Entity ID: 11

Entity Groups

Sequence Annotations

Entity ID: 12

Entity Groups

Sequence Annotations

Entity ID: 13

Entity Groups

Sequence Annotations

Entity ID: 14

Entity Groups

Sequence Annotations

Entity ID: 15

Entity Groups

Sequence Annotations

Entity ID: 16

Entity Groups

Sequence Annotations

Entity ID: 17

Entity Groups

Sequence Annotations

Entity ID: 18

Entity Groups

Sequence Annotations

Entity ID: 19

UniProt

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Sequence Annotations

Entity ID: 20

Entity Groups

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Entity ID: 21

Entity Groups

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Entity ID: 22

Entity Groups

Sequence Annotations

Entity ID: 23

Entity Groups

Sequence Annotations

Entity ID: 24

Entity Groups

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Entity ID: 25

Entity Groups

Sequence Annotations

Entity ID: 26