J5_1N33_002

3D structure

PDB id

1N33 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Thermus thermophilus 30S ribosomal subunit bound to codon and near-cognate transfer rna anticodon stem-loop mismatched at the second codon position at the a site with paromomycin

Experimental method

X-RAY DIFFRACTION

Resolution

3.35 Å

Loop

Sequence

CAAG*CGGACGGG*CAG*CAC*GGCAG

Length

23 nucleotides

Bulged bases

1N33|1|A|A|109, 1N33|1|A|C|352

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

J5_1N33_002 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.065

The information below is about J5_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_59910.6

Basepair signature

cWW-F-tSS-cSS-F-cWW-cWW-cWW-F-F-cWW-F-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

1N33|1|A|C|58
1N33|1|A|A|59
1N33|1|A|A|60
1N33|1|A|G|61
*
1N33|1|A|C|106
1N33|1|A|G|107
1N33|1|A|G|108
1N33|1|A|A|109
1N33|1|A|C|110
1N33|1|A|G|111
1N33|1|A|G|112
1N33|1|A|G|113
*
1N33|1|A|C|314
1N33|1|A|A|315
1N33|1|A|G|316
*
1N33|1|A|C|337
1N33|1|A|A|338
1N33|1|A|C|339
*
1N33|1|A|G|350
1N33|1|A|G|351
1N33|1|A|C|352
1N33|1|A|A|353
1N33|1|A|G|354

Current chains

Chain A

16S RIBOSOMAL RNA

Nearby chains

Chain P

30S RIBOSOMAL PROTEIN S16

Chain T

30S RIBOSOMAL PROTEIN S20