IL_4V4Y_070

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

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

4V4Y|1|BA|G|801, 4V4Y|1|BA|G|805

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_070 not in the Motif Atlas

Geometric match to IL_7A0S_015

Geometric discrepancy: 0.2098

The information below is about IL_7A0S_015

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_73855.1

Basepair signature

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

Number of instances in this motif group

10

Unit IDs

4V4Y|1|BA|G|674
4V4Y|1|BA|A|675
4V4Y|1|BA|A|676
4V4Y|1|BA|A|677
4V4Y|1|BA|C|678
*
4V4Y|1|BA|G|799
4V4Y|1|BA|A|800
4V4Y|1|BA|G|801
4V4Y|1|BA|A|802
4V4Y|1|BA|U|803
4V4Y|1|BA|A|804
4V4Y|1|BA|G|805
4V4Y|1|BA|C|806

Current chains

Chain BA

23S ribosomal RNA

Nearby chains

Chain BF

50S ribosomal protein L4

Chain BO

50S ribosomal protein L15