IL_4V4Y_041

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

UGCAU*AUG

Length

8 nucleotides

Bulged bases

4V4Y|1|AA|C|1054

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

IL_4V4Y_041 not in the Motif Atlas

Homologous match to IL_4LFB_044

Geometric discrepancy: 0.2574

The information below is about IL_4LFB_044

Detailed Annotation

Isolated cWS basepair

Broad Annotation

No text annotation

Motif group

IL_76319.5

Basepair signature

cWW-L-R-L-cWW

Number of instances in this motif group

3

Unit IDs

4V4Y|1|AA|U|1052
4V4Y|1|AA|G|1053
4V4Y|1|AA|C|1054
4V4Y|1|AA|A|1055
4V4Y|1|AA|U|1056
*
4V4Y|1|AA|A|1204
4V4Y|1|AA|U|1205
4V4Y|1|AA|G|1206

Current chains

Chain AA

16S ribosomal RNA

Nearby chains

Chain A1

mRNA

Chain AB

Transfer RNA; tRNA

Chain AF

30S ribosomal protein S3

Chain AM

30S ribosomal protein S10

Chain AQ

30S ribosomal protein S14