4W2IBD

Crystal structure of the thermus thermophilus 70s ribosome in complex with negamycin, mrna and three deacylated trnas in the a, p and e sites
Total Genus 52
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
52
sequence length
275
structure length
275
Chain Sequence
AVKKFKPYTPSRRFMTVADFSEITKTEPEKSLVKPLKKTGGRNNQGRITVRFRGGGHKRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRYIIAPDGLQVGQQVVAGPDAPIQVGNALPLRFIPVGTVVHAVELEPKKGAKLARAAGTSAQIQGREGDYVILRLPSGELRKVHGECYATVGAVGNADHKNIVLGKAGRSRWLGRRPHVRGAAMNPVDHPHGGGEGRAPRGRPPASPWGWQTKGLKTRKRRKPSSRFIIARRKK
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Ribosome/antibiotic
molecule keywords 16S Ribosomal RNA
publication title Negamycin Interferes with Decoding and Translocation by Simultaneous Interaction with rRNA and tRNA.
pubmed doi rcsb
source organism Escherichia coli
total genus 52
structure length 275
sequence length 275
chains with identical sequence DD
ec nomenclature
pdb deposition date 2014-09-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
BD PF00181 Ribosomal_L2 Ribosomal Proteins L2, RNA binding domain
BD PF03947 Ribosomal_L2_C Ribosomal Proteins L2, C-terminal domain
Image from the rcsb pdb (www.rcsb.org)
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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#similar chains, but unknotted
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