5LI0 image
Deposition Date 2016-07-13
Release Date 2016-12-28
Last Version Date 2024-05-15
Entry Detail
PDB ID:
5LI0
Keywords:
Title:
70S ribosome from Staphylococcus aureus
Biological Source:
Method Details:
Experimental Method:
Resolution:
3.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Gene (Uniprot):rpmB
Chain IDs:PA (auth: 0)
Chain Length:46
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L29
Gene (Uniprot):rpmC
Chain IDs:QA (auth: 1)
Chain Length:65
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Gene (Uniprot):rpmD
Chain IDs:RA (auth: 2)
Chain Length:57
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L31 type B
Gene (Uniprot):rpmE2
Chain IDs:SA (auth: 3)
Chain Length:84
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Gene (Uniprot):rpmF
Chain IDs:TA (auth: 4)
Chain Length:56
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33 2
Gene (Uniprot):rpmG2
Chain IDs:UA (auth: 5)
Chain Length:39
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Gene (Uniprot):rpmH
Chain IDs:VA (auth: 6)
Chain Length:44
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Gene (Uniprot):rpmI
Chain IDs:WA (auth: 7)
Chain Length:60
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Gene (Uniprot):rpmJ
Chain IDs:XA (auth: 8)
Chain Length:37
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polyribonucleotide
Molecule:23S ribosomal RNA
Chain IDs:U (auth: A)
Chain Length:1547
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polyribonucleotide
Molecule:5S ribosomal RNA
Chain IDs:V (auth: B)
Chain Length:114
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Gene (Uniprot):rplB
Chain IDs:W (auth: D)
Chain Length:199
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Gene (Uniprot):rplC
Chain IDs:X (auth: E)
Chain Length:165
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L4
Gene (Uniprot):rplD
Chain IDs:Y (auth: F)
Chain Length:96
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L5
Gene (Uniprot):rplE
Chain IDs:Z (auth: G)
Chain Length:150
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L6
Gene (Uniprot):rplF
Chain IDs:AA (auth: H)
Chain Length:131
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L13
Gene (Uniprot):rplM
Chain IDs:BA (auth: M)
Chain Length:119
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Gene (Uniprot):rplN
Chain IDs:CA (auth: N)
Chain Length:122
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Gene (Uniprot):rplO
Chain IDs:DA (auth: O)
Chain Length:131
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L16
Gene (Uniprot):rplP
Chain IDs:EA (auth: P)
Chain Length:90
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L17
Gene (Uniprot):rplQ
Chain IDs:FA (auth: Q)
Chain Length:86
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Gene (Uniprot):rplR
Chain IDs:GA (auth: R)
Chain Length:71
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Gene (Uniprot):rplS
Chain IDs:HA (auth: S)
Chain Length:110
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L20
Gene (Uniprot):rplT
Chain IDs:IA (auth: T)
Chain Length:80
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L21
Gene (Uniprot):rplU
Chain IDs:JA (auth: U)
Chain Length:102
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L22
Gene (Uniprot):rplV
Chain IDs:KA (auth: V)
Chain Length:112
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L23
Gene (Uniprot):rplW
Chain IDs:LA (auth: W)
Chain Length:89
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L24
Gene (Uniprot):rplX
Chain IDs:MA (auth: X)
Chain Length:100
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L25
Gene (Uniprot):rplY
Chain IDs:NA (auth: Y)
Chain Length:94
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L27
Gene (Uniprot):rpmA
Chain IDs:OA (auth: Z)
Chain Length:82
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polyribonucleotide
Molecule:16S ribosomal RNA
Chain IDs:A (auth: a)
Chain Length:1547
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Gene (Uniprot):rpsB
Chain IDs:B (auth: b)
Chain Length:114
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S3
Gene (Uniprot):rpsC
Chain IDs:C (auth: c)
Chain Length:217
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S4
Gene (Uniprot):rpsD
Chain IDs:D (auth: d)
Chain Length:199
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S5
Gene (Uniprot):rpsE
Chain IDs:E (auth: e)
Chain Length:165
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S6
Gene (Uniprot):rpsF
Chain IDs:F (auth: f)
Chain Length:96
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S7
Gene (Uniprot):rpsG
Chain IDs:G (auth: g)
Chain Length:150
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S8
Gene (Uniprot):rpsH
Chain IDs:H (auth: h)
Chain Length:131
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S9
Gene (Uniprot):rpsI
Chain IDs:I (auth: i)
Chain Length:128
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S10
Gene (Uniprot):rpsJ
Chain IDs:J (auth: j)
Chain Length:102
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S11
Gene (Uniprot):rpsK
Chain IDs:K (auth: k)
Chain Length:118
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S12
Gene (Uniprot):rpsL
Chain IDs:L (auth: l)
Chain Length:135
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S13
Gene (Uniprot):rpsM
Chain IDs:M (auth: m)
Chain Length:119
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S14 type Z
Gene (Uniprot):rpsZ
Chain IDs:N (auth: n)
Chain Length:122
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S15
Gene (Uniprot):rpsO
Chain IDs:O (auth: o)
Chain Length:131
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S16
Gene (Uniprot):rpsP
Chain IDs:P (auth: p)
Chain Length:90
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S17
Gene (Uniprot):rpsQ
Chain IDs:Q (auth: q)
Chain Length:86
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S18
Gene (Uniprot):rpsR
Chain IDs:R (auth: r)
Chain Length:71
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S19
Gene (Uniprot):rpsS
Chain IDs:S (auth: s)
Chain Length:110
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S20
Gene (Uniprot):rpsT
Chain IDs:T (auth: t)
Chain Length:80
Number of Molecules:1
Biological Source:Staphylococcus aureus (strain NCTC 8325)
Primary Citation
Structure of the 70S ribosome from human pathogen Staphylococcus aureus.
Nucleic Acids Res. 44 10491 10504 (2016)
PMID: 27906650 DOI: 10.1093/nar/gkw933

Abstact

Comparative structural studies of ribosomes from various organisms keep offering exciting insights on how species-specific or environment-related structural features of ribosomes may impact translation specificity and its regulation. Although the importance of such features may be less obvious within more closely related organisms, their existence could account for vital yet species-specific mechanisms of translation regulation that would involve stalling, cell survival and antibiotic resistance. Here, we present the first full 70S ribosome structure from Staphylococcus aureus, a Gram-positive pathogenic bacterium, solved by cryo-electron microscopy. Comparative analysis with other known bacterial ribosomes pinpoints several unique features specific to S. aureus around a conserved core, at both the protein and the RNA levels. Our work provides the structural basis for the many studies aiming at understanding translation regulation in S. aureus and for designing drugs against this often multi-resistant pathogen.

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Primary Citation of related structures