J5_7DUK_002

3D structure

PDB id

7DUK (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 N1,3''MS bound

Experimental method

X-RAY DIFFRACTION

Resolution

3.6 Å

Loop

Sequence

CAAG*CGGACGGG*CAG*CAC*GGCAG

Length

23 nucleotides

Bulged bases

7DUK|1|A|A|109, 7DUK|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_7DUK_002 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.0576

The information below is about J5_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_58574.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

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