J5_4V4Y_001

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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 nucleotides

Bulged bases

4V4Y|1|AA|U|37, 4V4Y|1|AA|G|38

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_001 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.1883

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

4V4Y|1|AA|C|36
4V4Y|1|AA|U|37
4V4Y|1|AA|G|38
4V4Y|1|AA|G|39
*
4V4Y|1|AA|C|403
4V4Y|1|AA|U|404
4V4Y|1|AA|U|405
4V4Y|1|AA|G|406
*
4V4Y|1|AA|C|436
4V4Y|1|AA|U|437
4V4Y|1|AA|G|438
4V4Y|1|AA|A|439
4V4Y|1|AA|A|440
4V4Y|1|AA|C|442
*
4V4Y|1|AA|G|492
4V4Y|1|AA|G|493
4V4Y|1|AA|U|494
4V4Y|1|AA|A|495
4V4Y|1|AA|A|496
4V4Y|1|AA|U|497
4V4Y|1|AA|A|498
4V4Y|1|AA|G|500
*
4V4Y|1|AA|C|545
4V4Y|1|AA|G|546
4V4Y|1|AA|A|547
4V4Y|1|AA|G|548

Current chains

Chain AA

16S ribosomal RNA

Nearby chains

Chain AG

30S ribosomal protein S4

Chain AO

30S ribosomal protein S12