IL_4V4Y_126

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

GCGUAGGAUAG*CC

Length

13 nucleotides

Bulged bases

4V4Y|1|BA|G|2116

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_126 not in the Motif Atlas

Homologous match to IL_3U4M_002

Geometric discrepancy: 0.3903

The information below is about IL_3U4M_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_32056.1

Basepair signature

cWW-L-cWW-L-L-tWH-R-L-R-L

Number of instances in this motif group

3

Unit IDs

4V4Y|1|BA|G|2110
4V4Y|1|BA|C|2111
4V4Y|1|BA|G|2112
4V4Y|1|BA|U|2113
4V4Y|1|BA|A|2114
4V4Y|1|BA|G|2115
4V4Y|1|BA|G|2116
4V4Y|1|BA|A|2117
4V4Y|1|BA|U|2118
4V4Y|1|BA|A|2119
4V4Y|1|BA|G|2120
*
4V4Y|1|BA|C|2178
4V4Y|1|BA|C|2179

Current chains

Chain BA

23S ribosomal RNA

Nearby chains

Chain AD

Transfer RNA; tRNA

Chain BC

50S ribosomal protein L1