J3_5LYB_023

3D structure

PDB id

5LYB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn

Experimental method

X-RAY DIFFRACTION

Resolution

3.25 Å

Loop

Sequence

CUUAAUUU*GGGGAAACUCAC*GGCCG

Length

25 nucleotides

Bulged bases

5LYB|1|2|G|1199, 5LYB|1|2|G|1201, 5LYB|1|2|A|1203

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_5LYB_023 not in the Motif Atlas

Homologous match to J3_8P9A_078

Geometric discrepancy: 0.0711

The information below is about J3_8P9A_078

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_83516.4

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

5LYB|1|2|C|1180
5LYB|1|2|U|1181
5LYB|1|2|U|1182
5LYB|1|2|A|1183
5LYB|1|2|A|1184
5LYB|1|2|U|1185
5LYB|1|2|U|1186
5LYB|1|2|U|1187
*
5LYB|1|2|G|1198
5LYB|1|2|G|1199
5LYB|1|2|G|1200
5LYB|1|2|G|1201
5LYB|1|2|A|1202
5LYB|1|2|A|1203
5LYB|1|2|A|1204
5LYB|1|2|C|1205
5LYB|1|2|U|1206
5LYB|1|2|C|1207
5LYB|1|2|A|1208
5LYB|1|2|C|1209
*
5LYB|1|2|G|1454
5LYB|1|2|G|1455
5LYB|1|2|C|1456
5LYB|1|2|C|1457
5LYB|1|2|G|1458

Current chains

Chain 2

18S rRNA

Nearby chains

Chain C5

40S ribosomal protein S15

Chain C8

40S ribosomal protein S18-A

Chain D0

40S ribosomal protein S20

Chain D9

40S ribosomal protein S29-A

Chain E1

Ubiquitin-40S ribosomal protein S31

Chain SM

Suppressor protein STM1,Suppressor protein STM1,Suppressor protein STM1