Brand  (β version)

PDB ID: 5NRG

Hetero Atom Contents

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Ligands
Code Name Style Show Link
95H ~{N}-[(1~{R},2~{R})-1-[(2~{R},3~{R},4~{S},5~{R},6~{R})-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]-2-oxidanyl-propy L]-4-nitro-benzamide PoSSuM
EPE 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid PoSSuM
MG Magnesium ion PoSSuM
MN Manganese (II) ion PoSSuM
MPD (4s)-2-methyl-2,4-pentanediol PoSSuM
SPD Spermidine PoSSuM
Non-standard Residues
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Glycosylation
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Structure summary

Code : 5NRG   PDBj   RCSB PDB   PDBe
Header : RIBOSOME
Title : The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with RB02
Release Data : 2017-08-09
Compound :
mol_id molecule chains
1 23S ribosomal RNA X
mol_id molecule chains
2 5S ribosomal RNA Y
mol_id molecule chains
3 50S ribosomal protein L2 A
mol_id molecule chains
4 50S ribosomal protein L3 B
mol_id molecule chains
5 50S ribosomal protein L4 C
mol_id molecule chains
6 50S ribosomal protein L5 D
mol_id molecule chains
7 50S ribosomal protein L6 E
mol_id molecule chains
8 50S ribosomal protein L13 G
mol_id molecule chains
9 50S ribosomal protein L14 H
mol_id molecule chains
10 50S ribosomal protein L15 I
mol_id molecule chains
11 50S ribosomal protein L16 J
mol_id molecule chains
12 50S ribosomal protein L17 K
mol_id molecule chains
13 50S ribosomal protein L18 L
mol_id molecule chains
14 50S ribosomal protein L19 M
mol_id molecule chains
15 50S ribosomal protein L20 N
mol_id molecule chains
16 50S ribosomal protein L21 O
mol_id molecule chains
17 50S ribosomal protein L22 P
mol_id molecule chains
18 50S ribosomal protein L23 Q
mol_id molecule chains
19 50S ribosomal protein L24 R
mol_id molecule chains synonym
20 50S ribosomal protein L25 S General stress protein CTC
mol_id molecule chains
21 50S ribosomal protein L27 T
mol_id molecule chains
22 50S ribosomal protein L29 V
mol_id molecule chains
23 50S ribosomal protein L30 W
mol_id molecule chains
24 50S ribosomal protein L32 Z
mol_id molecule chains
25 50S ribosomal protein L34 2
mol_id molecule chains
26 50S ribosomal protein L35 3
Source :
mol_id organism_scientific
1 Staphylococcus aureus subsp. aureus NCTC 8325  (taxid:93061)
mol_id organism_scientific
2 Staphylococcus aureus subsp. aureus NCTC 8325  (taxid:93061)
mol_id organism_scientific
3 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
4 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
5 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
6 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
7 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
8 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
9 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
10 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
11 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
12 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
13 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
14 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
15 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
16 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
17 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
18 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
19 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
20 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
21 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
22 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
23 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
24 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
25 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
mol_id organism_scientific
26 Staphylococcus aureus (strain NCTC 8325)  (taxid:93061)
strain: NCTC 8325
Authors : Yonath, A., Matzov, D., Eyal, Z., Ben Hamou, R., Zimmerman, E., Rozenberg, H., Bashan, A., Fridman, M.
Keywords : ribosome, RNA, antibiotics, lincosamides
Exp. method : X-RAY DIFFRACTION ( 3.4420 Å )
Citation :

Structural insights of lincosamides targeting the ribosome of Staphylococcus aureus.

Matzov, D.,Eyal, Z.,Benhamou, R.I.  et al.
(2017)  Nucleic Acids Res.  45 : 10284 - 10292

PubMed: 28973455
DOI: 10.1093/nar/gkx658

Reaction

Chain : A
UniProt : P60430 (RL2_STAA8)
Reaction : -
Chain : B
UniProt : Q2FW06 (RL3_STAA8)
Reaction : -
Chain : C
UniProt : Q2FW07 (RL4_STAA8)
Reaction : -
Chain : D
UniProt : Q2FW18 (RL5_STAA8)
Reaction : -
Chain : E
UniProt : Q2FW21 (RL6_STAA8)
Reaction : -
Chain : G
UniProt : Q2FW38 (RL13_STAA8)
Reaction : -
Chain : H
UniProt : Q2FW16 (RL14_STAA8)
Reaction : -
Chain : I
UniProt : P0A0F8 (RL15_STAA8)
Reaction : -
Chain : J
UniProt : Q2FW13 (RL16_STAA8)
Reaction : -
Chain : K
UniProt : Q2FW33 (RL17_STAA8)
Reaction : -
Chain : L
UniProt : Q2FW22 (RL18_STAA8)
Reaction : -
Chain : M
UniProt : Q2FZ42 (RL19_STAA8)
Reaction : -
Chain : N
UniProt : A7X3A1 (RL20_STAA1)
Reaction : -
Chain : O
UniProt : Q2FXS8 (RL21_STAA8)
Reaction : -
Chain : P
UniProt : Q2FW11 (RL22_STAA8)
Reaction : -
Chain : Q
UniProt : Q2FW08 (RL23_STAA8)
Reaction : -
Chain : R
UniProt : Q2FW17 (RL24_STAA8)
Reaction : -
Chain : S
UniProt : Q2G0S0 (Q2G0S0_STAA8)
Reaction : -
Chain : T
UniProt : Q2FXT0 (RL27_STAA8)
Reaction : -
Chain : V
UniProt : Q2FW14 (RL29_STAA8)
Reaction : -
Chain : W
UniProt : P0A0G2 (RL30_STAA8)
Reaction : -
Chain : Z
UniProt : Q2FZF1 (RL32_STAA8)
Reaction : -
Chain : 2
UniProt : Q2FUQ0 (RL34_STAA8)
Reaction : -
Chain : 3
UniProt : A7X3A2 (RL35_STAA1)
Reaction : -