STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME IN COMPLEX WITH MRNA, PAROMOMYCIN, ACYLATED A- AND P-SITE TRNAS, AND E-SITE TRNA. THIS FILE CONTAINS THE 50S SUBUNIT FOR MOLECULE I. DOI:10.2210/pdb2wdl/pdb   NDB ID: 2WDL

2WDL   Display Files  close FASTA Sequence PDB File PDB File (Header) mmCIF File mmCIF File (Header) PDBML/XML File PDBML/XML File (Header)   Download Files  close FASTA Sequence PDB File (Text) PDB File (gz) mmCIF File mmCIF File (gz) PDBML/XML File PDBML/XML File (gz) Structure Factor (Text) Structure Factor (gz) Biological Assembly (gz) (A+S)   Share this Page  close Facebook Twitter LinkedIn Email Link this Page

Split Entry The asymmetric unit for this structure is composed of multiple PDB entries: 2WDK   2WDL   2WDM   2WDN     Download All Files      Primary Citation       Related Citations in PDB Entry (REMARK 1) Hide     Molecular Description Hide Classification: Ribosome Structure Weight: 1380092.63 Molecule: 50S RIBOSOMAL PROTEIN L27 Polymer: 1 Type: protein Length: 85 Chains: 0 Organism Thermus thermophilus HB8 Gene Names rpmA TTHA1782 UniProtKB:   Protein Feature View | Search PDB | P60493     Molecule: 50S RIBOSOMAL PROTEIN L28 Polymer: 2 Type: protein Length: 98 Chains: 1 Organism Thermus thermophilus HB8 Gene Names rpmB TTHA0042 UniProtKB:   Protein Feature View | Search PDB | P60494     Molecule: 50S RIBOSOMAL PROTEIN L29 Polymer: 3 Type: protein Length: 72 Chains: 2 Organism Thermus thermophilus HB8 Gene Names rpmC TTHA1684 UniProtKB:   Protein Feature View | Search PDB | Q5SHP6     Molecule: 50S RIBOSOMAL PROTEIN L30 Polymer: 4 Type: protein Length: 60 Chains: 3 Organism Thermus thermophilus HB8 Gene Names rpmD TTHA1674 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ6     Molecule: 50S RIBOSOMAL PROTEIN L31 Polymer: 5 Type: protein Length: 71 Chains: 4 Organism Thermus thermophilus HB8 Gene Names rpmE TTHA1073 UniProtKB:   Protein Feature View | Search PDB | Q5SJE1     Molecule: 50S RIBOSOMAL PROTEIN L32 Polymer: 6 Type: protein Length: 60 Chains: 5 Organism Thermus thermophilus HB8 Gene Names rpmF rpl32 TTHA0418 UniProtKB:   Protein Feature View | Search PDB | P80339     Molecule: 50S RIBOSOMAL PROTEIN L33 Polymer: 7 Type: protein Length: 54 Chains: 6 Organism Thermus thermophilus HB8 Gene Names rpmG rpl33 TTHA0250 UniProtKB:   Protein Feature View | Search PDB | P35871     Molecule: 50S RIBOSOMAL PROTEIN L34 Polymer: 8 Type: protein Length: 49 Chains: 7 Organism Thermus thermophilus HB8 Gene Names rpmH rpl34 TTHA0446 UniProtKB:   Protein Feature View | Search PDB | P80340     Molecule: 50S RIBOSOMAL PROTEIN L35 Polymer: 9 Type: protein Length: 65 Chains: 8 Organism Thermus thermophilus HB8 Gene Names rpmI TTHA0552 UniProtKB:   Protein Feature View | Search PDB | Q5SKU1     Molecule: 50S RIBOSOMAL PROTEIN L36 Polymer: 10 Type: protein Length: 37 Chains: 9 Organism Thermus thermophilus HB8 Gene Names rpmJ TTHA1668 UniProtKB:   Protein Feature View | Search PDB | Q5SHR2     Molecule: 23S RIBOSOMAL RNA Polymer: 11 Type: rna Length: 2822 Chains: A Details: CHAIN A (23S RNA) HAS E.COLI RESIDUE NUMBERING, BASED ON A STRUCTURAL ALIGNMENT WITH THE CORRESPONDING E. COLI STRUCTURE IN 2AW4 Organism Thermus thermophilus HB8 Molecule: 5S RIBOSOMAL RNA Polymer: 12 Type: rna Length: 122 Chains: B Organism Thermus thermophilus HB8 Molecule: 50S RIBOSOMAL PROTEIN L1 Polymer: 13 Type: protein Length: 229 Chains: C Organism Thermus thermophilus HB8 Gene Names rplA TTHA0246 UniProtKB:   Protein Feature View | Search PDB | Q5SLP7     Molecule: 50S RIBOSOMAL PROTEIN L2 Polymer: 14 Type: protein Length: 276 Chains: D Organism Thermus thermophilus HB8 Gene Names rplB TTHA1689 UniProtKB:   Protein Feature View | Search PDB | P60405     Molecule: 50S RIBOSOMAL PROTEIN L3 Polymer: 15 Type: protein Length: 206 Chains: E Organism Thermus thermophilus HB8 Gene Names rplC TTHA1692 UniProtKB:   Protein Feature View | Search PDB | Q5SHN8     Molecule: 50S RIBOSOMAL PROTEIN L4 Polymer: 16 Type: protein Length: 210 Chains: F Organism Thermus thermophilus HB8 Gene Names rplD TTHA1691 UniProtKB:   Protein Feature View | Search PDB | Q5SHN9     Molecule: 50S RIBOSOMAL PROTEIN L5 Polymer: 17 Type: protein Length: 182 Chains: G Organism Thermus thermophilus HB8 Gene Names rplE TTHA1680 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ0     Molecule: 50S RIBOSOMAL PROTEIN L6 Polymer: 18 Type: protein Length: 180 Chains: H Organism Thermus thermophilus HB8 Gene Names rplF TTHA1677 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ3     Molecule: 50S RIBOSOMAL PROTEIN L9 Polymer: 19 Type: protein Length: 148 Chains: I Organism Thermus thermophilus HB8 Gene Names rplI TTHA0242 UniProtKB:   Protein Feature View | Search PDB | Q5SLQ1     Molecule: 50S RIBOSOMAL PROTEIN L13 Polymer: 20 Type: protein Length: 140 Chains: N Organism Thermus thermophilus HB8 Gene Names rplM TTHA1465 UniProtKB:   Protein Feature View | Search PDB | P60488     Molecule: 50S RIBOSOMAL PROTEIN L14 Polymer: 21 Type: protein Length: 122 Chains: O Organism Thermus thermophilus HB8 Gene Names rplN TTHA1682 UniProtKB:   Protein Feature View | Search PDB | Q5SHP8     Molecule: 50S RIBOSOMAL PROTEIN L15 Polymer: 22 Type: protein Length: 150 Chains: P Organism Thermus thermophilus HB8 Gene Names rplO TTHA1673 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ7     Molecule: 50S RIBOSOMAL PROTEIN L16 Polymer: 23 Type: protein Length: 141 Chains: Q Organism Thermus thermophilus HB8 Gene Names rplP TTHA1685 UniProtKB:   Protein Feature View | Search PDB | P60489     Molecule: 50S RIBOSOMAL PROTEIN L17 Polymer: 24 Type: protein Length: 118 Chains: R Organism Thermus thermophilus HB8 Gene Names rplQ rpl17 TTHA1663 UniProtKB:   Protein Feature View | Search PDB | Q9Z9H5     Molecule: 50S RIBOSOMAL PROTEIN L18 Polymer: 25 Type: protein Length: 112 Chains: S Organism Thermus thermophilus HB8 Gene Names rplR TTHA1676 UniProtKB:   Protein Feature View | Search PDB | Q5SHQ4     Molecule: 50S RIBOSOMAL PROTEIN L19 Polymer: 26 Type: protein Length: 146 Chains: T Organism Thermus thermophilus HB8 Gene Names rplS TTHA1031 UniProtKB:   Protein Feature View | Search PDB | P60490     Molecule: 50S RIBOSOMAL PROTEIN L20 Polymer: 27 Type: protein Length: 118 Chains: U Organism Thermus thermophilus HB8 Gene Names rplT TTHA0553 UniProtKB:   Protein Feature View | Search PDB | P60491     Molecule: 50S RIBOSOMAL PROTEIN L21 Polymer: 28 Type: protein Length: 101 Chains: V Organism Thermus thermophilus HB8 Gene Names rplU TTHA1783 UniProtKB:   Protein Feature View | Search PDB | P60492     Molecule: 50S RIBOSOMAL PROTEIN L22 Polymer: 29 Type: protein Length: 113 Chains: W Organism Thermus thermophilus HB8 Gene Names rplV TTHA1687 UniProtKB:   Protein Feature View | Search PDB | Q5SHP3     Molecule: 50S RIBOSOMAL PROTEIN L23 Polymer: 30 Type: protein Length: 96 Chains: X Organism Thermus thermophilus HB8 Gene Names rplW TTHA1690 UniProtKB:   Protein Feature View | Search PDB | Q5SHP0     Molecule: 50S RIBOSOMAL PROTEIN L24 Polymer: 31 Type: protein Length: 110 Chains: Y Organism Thermus thermophilus HB8 Gene Names rplX TTHA1681 UniProtKB:   Protein Feature View | Search PDB | Q5SHP9     Molecule: 50S RIBOSOMAL PROTEIN L25 Polymer: 32 Type: protein Length: 206 Chains: Z Organism Thermus thermophilus HB8 Gene Names rplY rpl25 rptL5 TTHA1589 UniProtKB:   Protein Feature View | Search PDB | Q5SHZ1         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: Thermus thermophilus   Taxonomy     Polymer: 23 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 24 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 25 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 26 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 27 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 28 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 29 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 30 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 31 Scientific Name: Thermus thermophilus   Taxonomy     Polymer: 32 Scientific Name: Thermus thermophilus   Taxonomy         Related PDB Entries Hide Identifier Details 1GD8  THE CRYSTAL STRUCTURE OF BACTERIA-SPECIFIC L17 RIBOSOMALPROTEIN.  1GIY  CRYSTAL STRUCTURE OF THE RIBOSOME AT 5.5 A RESOLUTION. THISFILE, 1GIY, CONTAINS THE 50S RIBOSOME SUBUNIT. THE 30SRIBOSOME SUBUNIT , THREE TRNA, AND MRNA MOLECULES ARE IN THEFILE 1GIX  1V8Q  CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L27 FROM THERMUSTHERMOPHILUS HB8  1WKI  SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN L16 FROM THERMUSTHERMOPHILUS HB8  1YL3  CRYSTAL STRUCTURE OF 70S RIBOSOME WITH THRS OPERATOR ANDTRNAS. LARGE SUBUNIT. THE COORDINATES FOR THE SMALLSUBUNIT ARE IN THE PDB ENTRY 1YL4.  2B66  50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASEFACTOR RF1, TRNAS AND MRNA BOUND TO THE RIBOSOME. THISFILE CONTAINS THE 50S SUBUNIT FROM A CRYSTAL STRUCTURE OFRELEASE FACTOR RF1, TRNAS AND MRNA BOUND TO THE RIBOSOMEAND IS DESCRIBED IN REMARK 400  2B9N  50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASEFACTOR RF2, TRNAS AND MRNA BOUND TO THE RIBOSOME. THISFILE CONTAINS THE 50S SUBUNIT FROM A CRYSTAL STRUCTURE OFRELEASE FACTOR RF1, TRNAS AND MRNA BOUND TO THE RIBOSOMEAND IS DESCRIBED IN REMARK 400.  2B9P  50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF THERIBOSOME IN COMPLEX WITH TRNAS AND MRNA WITH A STOP CODONIN THE A -SITE. THIS FILE CONTAINS THE 50S SUBUNIT FROM ACRYSTAL STRUCTURE OF THE RIBOSOME IN COMPLEX WITH TRNASAND MRNA WITH A STOP CODON IN THE A-SITE AND IS DESCRIBEDIN REMARK 400.  2J01  STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME COMPLEXED WITH MRNA, TRNA AND PAROMOMYCIN (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FROM MOLECULE I.  2J03  STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME COMPLEXED WITH MRNA, TRNA AND PAROMOMYCIN (PART 4 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FROM MOLECULE II.  2JL6  INSIGHTS INTO TRANSLATIONAL TERMINATION FROM THE STRUCTURE OF RF2 BOUND TO THE RIBOSOME (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT.  2JL8  INSIGHTS INTO TRANSLATIONAL TERMINATION FROM THE STRUCTURE OF RF2 BOUND TO THE RIBOSOME (PART 4 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT.  2V47  STRUCTURE OF THE RIBOSOME RECYCLING FACTOR BOUND TO THE THERMUS THERMOPHILUS 70S RIBOSOME WITH MRNA, ASL-PHE AND TRNA-FMET (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FOR MOLECULE 1.  2V49  STRUCTURE OF THE RIBOSOME RECYCLING FACTOR BOUND TO THE THERMUS THERMOPHILUS 70S RIBOSOME WITH MRNA, ASL-PHE AND TRNA-FMET (PART 4 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT OF MOLECULE 2.      External Domain Annotations Hide CATH Classification v3.4.0: 10 Domains - data from CATH   Pfam Classification: 34 Domains - data from Pfam   GO Terms: 201 Terms - data from GO      Structural Biology Knowledgebase Data Hide   Nucleic Acid Database Hide View the NDB ID associated with this structure: 2WDL     Data in orange boxes are gathered from external resources (when available). Reset Layout

Biological Assembly            View in 3D More Images... Composite of PDB entries (2WDK and 2WDL)         MyPDB Personal Annotations Hide     Deposition Summary Hide Authors:   Voorhees, R.M.,  Weixlbaumer, A.,  Loakes, D.,  Kelley, A.C.,  Ramakrishnan, V. Deposition:   2009-03-24 Release:   2009-04-14 Last Modified (REVDAT):   2009-08-25     Revision History    Hide Mouse over text for details 2011-07-13 Version format compliance     Experimental Details Hide Method:   X-RAY DIFFRACTION Exp. Data:   Structure Factors Resolution[Å]:   3.50 R-Value: 0.208 (obs.) R-Free: 0.256 Space Group: P 21 21 21 Unit Cell:   Length [Å] Angles [°] a = 210.86 α = 90.00  b = 450.46 β = 90.00  c = 628.88 γ = 90.00      Molecule of the Month Hide Ribosome Transfer-Messenger RNA