IL_4V4Y_134

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

CCGAG*CGGCG

Length

10 nucleotides

Bulged bases

None detected

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_134 not in the Motif Atlas

Homologous match to IL_5J7L_338

Geometric discrepancy: 0.2124

The information below is about IL_5J7L_338

Detailed Annotation

Double sheared with non-canonical cWW

Broad Annotation

Double sheared

Motif group

IL_17948.2

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

13

Unit IDs

4V4Y|1|BA|C|2466
4V4Y|1|BA|C|2467
4V4Y|1|BA|G|2468
4V4Y|1|BA|A|2469
4V4Y|1|BA|G|2470
*
4V4Y|1|BA|C|2480
4V4Y|1|BA|G|2481
4V4Y|1|BA|G|2482
4V4Y|1|BA|C|2483
4V4Y|1|BA|G|2484

Current chains

Chain BA

23S ribosomal RNA

Nearby chains

Chain AB

Transfer RNA; tRNA

Chain B8

50S ribosomal protein L36

Chain BP

50S ribosomal protein L16