The structures of Capreomycin bound to the 70S ribosome. THIS FILE CONTAINS THE 30S SUBUNIT FOR MOLECULE I DOI:10.2210/pdb3knl/pdb   NDB ID: NA0406

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Split Entry The asymmetric unit for this structure is composed of multiple PDB entries: 3KNL   3KNM   3KNN   3KNO     Download All Files      Primary Citation       Related Citations in PDB Entry (REMARK 1) Hide     Molecular Description Hide Classification: Ribosome/antibiotic Structure Weight: 865470.55 Molecule: 16S ribosomal RNA Polymer: 1 Type: rna Length: 1508 Chains: A Organism Thermus thermophilus HB8 Molecule: 30S ribosomal protein S2 Polymer: 2 Type: protein Length: 256 Chains: B Organism Thermus thermophilus HB8 Gene Names rpsB rps2 TTHA0861 UniProtKB:   Protein Feature View | Search PDB | P80371     Molecule: 30S ribosomal protein S3 Polymer: 3 Type: protein Length: 239 Chains: C Organism Thermus thermophilus HB8 Gene Names rpsC rps3 TTHA1686 UniProtKB:   Protein Feature View | Search PDB | P80372     Molecule: 30S ribosomal protein S4 Polymer: 4 Type: protein Length: 209 Chains: D Organism Thermus thermophilus HB8 Gene Names rpsD rps4 TTHA1665 UniProtKB:   Protein Feature View | Search PDB | P80373     Molecule: 30S ribosomal protein S5 Polymer: 5 Type: protein Length: 162 Chains: E Organism Thermus thermophilus HB8 Gene Names rpsE TTHA1675 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ5     Molecule: 30S ribosomal protein S6 Polymer: 6 Type: protein Length: 101 Chains: F Organism Thermus thermophilus HB8 Gene Names rpsF TTHA0245 UniProtKB:   Protein Feature View | Search PDB | Q5SLP8     Molecule: 30S ribosomal protein S7 Polymer: 7 Type: protein Length: 156 Chains: G Organism Thermus thermophilus HB8 Gene Names rpsG rps7 TTHA1696 UniProtKB:   Protein Feature View | Search PDB | P17291     Molecule: 30S ribosomal protein S8 Polymer: 8 Type: protein Length: 138 Chains: H Organism Thermus thermophilus HB8 Gene Names rpsH TTHA1678 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ2     Molecule: 30S ribosomal protein S9 Polymer: 9 Type: protein Length: 128 Chains: I Organism Thermus thermophilus HB8 Gene Names rpsI rps9 TTHA1464 UniProtKB:   Protein Feature View | Search PDB | P80374     Molecule: 30S ribosomal protein S10 Polymer: 10 Type: protein Length: 105 Chains: J Organism Thermus thermophilus HB8 Gene Names rpsJ TTHA1693 UniProtKB:   Protein Feature View | Search PDB | Q5SHN7     Molecule: 30S ribosomal protein S11 Polymer: 11 Type: protein Length: 129 Chains: K Organism Thermus thermophilus HB8 Gene Names rpsK rps11 TTHA1666 UniProtKB:   Protein Feature View | Search PDB | P80376     Molecule: 30S ribosomal protein S12 Polymer: 12 Type: protein Length: 132 Chains: L Organism Thermus thermophilus HB8 Gene Names rpsL TTHA1697 UniProtKB:   Protein Feature View | Search PDB | Q5SHN3     Molecule: 30S ribosomal protein S13 Polymer: 13 Type: protein Length: 126 Chains: M Organism Thermus thermophilus HB8 Gene Names rpsM rps13 TTHA1667 UniProtKB:   Protein Feature View | Search PDB | P80377     Molecule: 30S ribosomal protein S14 Polymer: 14 Type: protein Length: 61 Chains: N Organism Thermus thermophilus HB8 Gene Names rpsZ rpsN TTHA1679 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ1     Molecule: 30S ribosomal protein S15 Polymer: 15 Type: protein Length: 89 Chains: O Organism Thermus thermophilus HB8 Gene Names rpsO TTHA1138 UniProtKB:   Protein Feature View | Search PDB | Q5SJ76     Molecule: 30S ribosomal protein S16 Polymer: 16 Type: protein Length: 88 Chains: P Organism Thermus thermophilus HB8 Gene Names rpsP TTHA1035 UniProtKB:   Protein Feature View | Search PDB | Q5SJH3     Molecule: 30S ribosomal protein S17 Polymer: 17 Type: protein Length: 105 Chains: Q Organism Thermus thermophilus HB8 Gene Names rpsQ TTHA1683 UniProtKB:   Protein Feature View | Search PDB | Q5SHP7     Molecule: 30S ribosomal protein S18 Polymer: 18 Type: protein Length: 88 Chains: R Organism Thermus thermophilus HB8 Gene Names rpsR TTHA0243 UniProtKB:   Protein Feature View | Search PDB | Q5SLQ0     Molecule: 30S ribosomal protein S19 Polymer: 19 Type: protein Length: 93 Chains: S Organism Thermus thermophilus HB8 Gene Names rpsS TTHA1688 UniProtKB:   Protein Feature View | Search PDB | Q5SHP2     Molecule: 30S ribosomal protein S20 Polymer: 20 Type: protein Length: 106 Chains: T Organism Thermus thermophilus HB8 Gene Names rpsT rps20 TTHA1397 UniProtKB:   Protein Feature View | Search PDB | P80380     Molecule: 30S ribosomal protein Thx Polymer: 21 Type: protein Length: 27 Chains: U Organism Thermus thermophilus HB8 Gene Names rpsU TTHA1396 UniProtKB:   Protein Feature View | Search PDB | Q5SIH3     Molecule: RNA (5'-R(*AP*AP*AP*AP*AP*GP*GP*AP*AP*AP*UP*A*AP*AP*AP*AP*UP*GP*CP*AP*GP*UP*UP*CP*AP*AP*UP*CP*UP*A)-3') Polymer: 22 Type: rna Length: 30 Chains: V Details: mRNA Molecule: tRNA-Gln Polymer: 23 Type: rna Length: 75 Chains: W Details: A-site tRNA Gln Organism Escherichia coli DH1 Molecule: tRNA-Met Polymer: 24 Type: rna Length: 77 Chains: X Details: P-site tRNA fMet Organism Escherichia coli DH1 Molecule: tRNA-Gln Polymer: 25 Type: rna Length: 75 Chains: Y Details: E-site tRNA Gln Organism Pectobacterium wasabiae WPP163 Molecule: capreomycin IA Polymer: 26 Type: protein Length: 6 Chains: Z Organism Streptomyces puniceus     Source Hide Polymer: 1 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 2 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 3 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 4 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 5 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 6 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 7 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 8 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 9 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 10 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 11 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 12 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 13 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 14 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 15 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 16 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 17 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 18 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 19 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 20 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 21 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 22 Scientific Name: Synthetic construct   Taxonomy     Polymer: 23 Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli   Polymer: 24 Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli   Polymer: 25 Scientific Name: Pectobacterium wasabiae wpp163   Taxonomy   Expression System: Escherichia coli   Polymer: 26 Scientific Name: Streptomyces puniceus   Taxonomy         Related PDB Entries Hide Identifier Details 3KNH  The structures of viomycin bound to the 70S ribosome  3KNI  The structures of viomycin bound to the 70S ribosome  3KNJ  The structures of viomycin bound to the 70S ribosome  3KNK  The structures of viomycin bound to the 70S ribosome      Biologically Interesting Molecules (BIRD) Hide Identifier Image Name Type Class Chain ID   PRD_000193 Search  Capreomycin IA Cyclic peptide Inhibitor Z   Ligand Explorer     Ligand Chemical Component Hide Identifier Formula Name Interactions MG Search  Download  Mg MAGNESIUM ION   Ligand Explorer ZN Search  Download  Zn ZINC ION   Ligand Explorer     Modified Residues Hide Identifier Formula Parent Type KBE Search  C6 H14 N2 O2 LYS lPeptideLinking DPP Search  C3 H8 N2 O2 ALA lPeptideLinking UAL Search  C4 H7 N3 O3 glycine MYN Search  C6 H12 N4 O2 ARG lPeptideLinking     External Domain Annotations Hide CATH Classification v3.4.0: 20 Domains - data from CATH   Pfam Classification: 22 Domains - data from Pfam   GO Terms: 150 Terms - data from GO      Structural Biology Knowledgebase Data Hide   Nucleic Acid Database Hide View the NDB ID associated with this structure: NA0406     Data in orange boxes are gathered from external resources (when available). 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Biological Assembly            View in 3D More Images... Composite of PDB entries (3KNL and 3KNM)         MyPDB Personal Annotations Hide     Deposition Summary Hide Authors:   Stanley, R.E.,  Blaha, G. Deposition:   2009-11-12 Release:   2010-02-23 Last Modified (REVDAT):   2013-03-13     Revision History    Hide Mouse over text for details 2013-03-13 Other 2012-12-12 Other 2011-09-14 Polymer description 2011-07-27 Sequence database correspondence 2011-07-13 Source and taxonomy 2011-07-13 Version format compliance     Experimental Details Hide Method:   X-RAY DIFFRACTION Exp. Data:   Structure Factors Resolution[Å]:   3.45 R-Value: 0.218 (obs.) R-Free: 0.268 Space Group: P 21 21 21 Unit Cell:   Length [Å] Angles [°] a = 210.35 α = 90.00  b = 448.24 β = 90.00  c = 631.16 γ = 90.00      Molecule of the Month Hide Ribosomal Subunits Ribosome Aminoglycoside Antibiotics Transfer-Messenger RNA