4YHH Crystal structure of the 30S ribosomal subunit from Thermus thermophilus in complex with tigecycline date
authors Schedlbauer, A., Kaminishi, T., Ochoa-Lizarralde, B., Dhimole, N., Zhou, S., Lopez-Alonso, J.P., Connell, S.R., Fucini, P.
compound source
symmetry
R_factor
R_Free 0.2874
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.42
ligand MG, T1C, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
B


C


D


E


F


G


H


I


J


K


L


M


N


O


P


Q


R


S


T


V


Primary referenceStructural characterization of an alternative-binding mode for tigecycline to the bacterial ribosome., Schedlbauer A, Kaminishi T, Ochoa-Lizarralde B, Dhimole N, Zhou S, Lopez-Alonso JP, Connell SR, Fucini P, Antimicrob Agents Chemother. 2015 Mar 9. pii: AAC.04895-14. PMID:25753625
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1040 Kb) [Save to disk]
  • Biological Unit Coordinates (4yhh.pdb1.gz) 1029 Kb
  • LPC: Ligand-Protein Contacts for 4YHH
  • CSU: Contacts of Structural Units for 4YHH
  • Structure Factors (1878 Kb)
  • Retrieve 4YHH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YHH from S2C, [Save to disk]
  • Re-refined 4yhh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4YHH in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 4YHH
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4YHH, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yhh_Q] [4yhh_I] [4yhh_P] [4yhh_T] [4yhh_N] [4yhh] [4yhh_E] [4yhh_O] [4yhh_F] [4yhh_B] [4yhh_A] [4yhh_V] [4yhh_G] [4yhh_M] [4yhh_H] [4yhh_R] [4yhh_K] [4yhh_J] [4yhh_C] [4yhh_L] [4yhh_S] [4yhh_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4YHH: [KH] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
    • Other resources with information on 4YHH
  • Community annotation for 4YHH at PDBWiki (http://pdbwiki.org)

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