J4_4V4Y_009

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

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

4V4Y|1|BA|G|1271, 4V4Y|1|BA|A|1272, 4V4Y|1|BA|U|1273, 4V4Y|1|BA|A|1274, 4V4Y|1|BA|A|1275, 4V4Y|1|BA|C|1646, 4V4Y|1|BA|G|1647

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

J4_4V4Y_009 not in the Motif Atlas

Homologous match to J4_9DFE_003

Geometric discrepancy: 0.3036

The information below is about J4_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.6

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

4V4Y|1|BA|C|1270
4V4Y|1|BA|G|1271
4V4Y|1|BA|A|1272
4V4Y|1|BA|U|1273
4V4Y|1|BA|A|1274
4V4Y|1|BA|A|1275
4V4Y|1|BA|A|1276
*
4V4Y|1|BA|U|1294
4V4Y|1|BA|C|1295
*
4V4Y|1|BA|G|1645
4V4Y|1|BA|C|1646
4V4Y|1|BA|G|1647
4V4Y|1|BA|C|1648
*
4V4Y|1|BA|G|2009
4V4Y|1|BA|G|2010

Current chains

Chain BA

23S ribosomal RNA

Nearby chains

Chain B4

50S ribosomal protein L32

Chain BQ

50S ribosomal protein L17

Chain BV

50S ribosomal protein L22