5NRG: The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with RB02

PDB ID: 5NRGDownload
MMDB ID: 153427
PDB Deposition Date: 2017/4/23
Updated in MMDB: 2017/11
Experimental Method:
x-ray diffraction
Resolution: 3.442  Å
Source Organism:
Similar Structures:
Biological Unit for 5NRG: 26-meric; determined by author and by software (PISA)
Molecular Components in 5NRG
Label Count Molecule
Proteins (24 molecules)
1
50S Ribosomal Protein L2
(Gene symbol: rplB)
Molecule annotation
1
50S Ribosomal Protein L3
(Gene symbol: rplC)
Molecule annotation
1
50S Ribosomal Protein L4
(Gene symbol: rplD)
Molecule annotation
1
50S Ribosomal Protein L5
(Gene symbol: rplE)
Molecule annotation
1
50S Ribosomal Protein L6
(Gene symbol: rplF)
Molecule annotation
1
50S Ribosomal Protein L13
(Gene symbol: rplM)
Molecule annotation
1
50S Ribosomal Protein L14
(Gene symbol: rplN)
Molecule annotation
1
50S Ribosomal Protein L15
(Gene symbol: rplO)
Molecule annotation
1
50S Ribosomal Protein L16
(Gene symbol: rplP)
Molecule annotation
1
50S Ribosomal Protein L17
(Gene symbol: rplQ)
Molecule annotation
1
50S Ribosomal Protein L18
(Gene symbol: rplR)
Molecule annotation
1
50S Ribosomal Protein L19
(Gene symbol: rplS)
Molecule annotation
1
50S Ribosomal Protein L20
Molecule annotation
1
50S Ribosomal Protein L21
(Gene symbol: rplU)
Molecule annotation
1
50S Ribosomal Protein L22
(Gene symbol: rplV)
Molecule annotation
1
50S Ribosomal Protein L23
(Gene symbol: rplW)
Molecule annotation
1
50S Ribosomal Protein L24
(Gene symbol: rplX)
Molecule annotation
1
50S Ribosomal Protein L25
Molecule annotation
1
50S Ribosomal Protein L27
(Gene symbol: rpmA)
Molecule annotation
1
50S Ribosomal Protein L29
(Gene symbol: SAOUHSC_02504)
Molecule annotation
1
50S Ribosomal Protein L30
(Gene symbol: rpmD)
Molecule annotation
1
50S Ribosomal Protein L32
Molecule annotation
1
50S Ribosomal Protein L34
(Gene symbol: SSP_RS12270)
Molecule annotation
1
50S Ribosomal Protein L35
Molecule annotation
Nucleotides(2 molecules)
1
23S Ribosomal RNA
Molecule annotation
1
5S Ribosomal RNA
Molecule annotation
Chemicals and Non-standard biopolymers (299 molecules)
1
1
~{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~{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
2
2
(4S)-2-METHYL-2,4-PENTANEDIOL(4S)-2-METHYL-2,4-PENTANEDIOL
3
210
MANGANESE (II) IONMANGANESE (II) ION
4
84
MAGNESIUM IONMAGNESIUM ION
5
1
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
6
1
SPERMIDINESPERMIDINE
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303