J5_4V4Y_002

3D structure

PDB id

4V4Y (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the 70S Thermus thermophilus ribosome with translocated and rotated Shine-Dalgarno Duplex.

Experimental method

X-RAY DIFFRACTION

Resolution

5.5 Å

Loop

Sequence

CAAG*CGGACGGG*CAG*CAC*GGCAG

Length

23 nucleotides

Bulged bases

4V4Y|1|AA|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_4V4Y_002 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.1893

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

4V4Y|1|AA|C|58
4V4Y|1|AA|A|59
4V4Y|1|AA|A|60
4V4Y|1|AA|G|61
*
4V4Y|1|AA|C|106
4V4Y|1|AA|G|107
4V4Y|1|AA|G|108
4V4Y|1|AA|A|109
4V4Y|1|AA|C|110
4V4Y|1|AA|G|111
4V4Y|1|AA|G|112
4V4Y|1|AA|G|113
*
4V4Y|1|AA|C|314
4V4Y|1|AA|A|315
4V4Y|1|AA|G|316
*
4V4Y|1|AA|C|337
4V4Y|1|AA|A|338
4V4Y|1|AA|C|339
*
4V4Y|1|AA|G|350
4V4Y|1|AA|G|351
4V4Y|1|AA|C|352
4V4Y|1|AA|A|353
4V4Y|1|AA|G|354

Current chains

Chain AA

16S ribosomal RNA

Nearby chains

Chain AS

30S ribosomal protein S16

Chain AW

30S ribosomal protein S20

Chain BN

50S ribosomal protein L14