J3_4V4Y_012

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

CGC*GGACUGC*GAGGAAGGAG

Length

20 nucleotides

Bulged bases

4V4Y|1|AA|A|1183

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

J3_4V4Y_012 not in the Motif Atlas

Homologous match to J3_4LFB_018

Geometric discrepancy: 0.3098

The information below is about J3_4LFB_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_40706.1

Basepair signature

cWW-F-cHW-cWW-tWH-cWW-F-tSW-tWS-cSH-cWW-cWW

Number of instances in this motif group

2

Unit IDs

4V4Y|1|AA|C|1116
4V4Y|1|AA|G|1117
4V4Y|1|AA|C|1118
*
4V4Y|1|AA|G|1155
4V4Y|1|AA|G|1156
4V4Y|1|AA|A|1157
4V4Y|1|AA|C|1158
4V4Y|1|AA|U|1159
4V4Y|1|AA|G|1160
4V4Y|1|AA|C|1161
*
4V4Y|1|AA|G|1175
4V4Y|1|AA|A|1176
4V4Y|1|AA|G|1177
4V4Y|1|AA|G|1178
4V4Y|1|AA|A|1179
4V4Y|1|AA|A|1180
4V4Y|1|AA|G|1181
4V4Y|1|AA|G|1182
4V4Y|1|AA|A|1183
4V4Y|1|AA|G|1184

Current chains

Chain AA

16S ribosomal RNA

Nearby chains

Chain AE

30S ribosomal protein S2

Chain AL

30S ribosomal protein S9

Chain AQ

30S ribosomal protein S14