J5_7DUG_002

3D structure

PDB id

7DUG (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with mRNA and cognate transfer RNA anticodon stem-loop and sisomicin derivative N1''TFMS bound

Experimental method

X-RAY DIFFRACTION

Resolution

3.75 Å

Loop

Sequence

CAAG*CGGACGGG*CAG*CAC*GGCAG

Length

23 nucleotides

Bulged bases

7DUG|1|A|A|109, 7DUG|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_7DUG_002 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.0694

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

7DUG|1|A|C|58
7DUG|1|A|A|59
7DUG|1|A|A|60
7DUG|1|A|G|61
*
7DUG|1|A|C|106
7DUG|1|A|G|107
7DUG|1|A|G|108
7DUG|1|A|A|109
7DUG|1|A|C|110
7DUG|1|A|G|111
7DUG|1|A|G|112
7DUG|1|A|G|113
*
7DUG|1|A|C|314
7DUG|1|A|A|315
7DUG|1|A|G|316
*
7DUG|1|A|C|337
7DUG|1|A|A|338
7DUG|1|A|C|339
*
7DUG|1|A|G|350
7DUG|1|A|G|351
7DUG|1|A|C|352
7DUG|1|A|A|353
7DUG|1|A|G|354

Current chains

Chain A

30S Ribosomal RNA rRNA

Nearby chains

Chain P

30S ribosomal protein S16

Chain T

30S ribosomal protein S20