J3_9YDD_035

3D structure

PDB id

9YDD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Eukaryotic 80S ribosome with A/A, P/P tRNAs from uL16 P-site loop mutants in bypass condition

Experimental method

ELECTRON MICROSCOPY

Resolution

2.66 Å

Loop

Sequence

CUUAAUUU*GGGGAAACUCAC*GGCCG

Length

25 nucleotides

Bulged bases

9YDD|1|E|G|1199, 9YDD|1|E|G|1201, 9YDD|1|E|A|1203

QA status

Unknown status

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_9YDD_035 not in the Motif Atlas

Homologous match to J3_9SUM_034

Geometric discrepancy: 0.0712

The information below is about J3_9SUM_034

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_88451.4

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

7

Unit IDs

9YDD|1|E|C|1180
9YDD|1|E|U|1181
9YDD|1|E|U|1182
9YDD|1|E|A|1183
9YDD|1|E|A|1184
9YDD|1|E|U|1185
9YDD|1|E|U|1186
9YDD|1|E|U|1187
*
9YDD|1|E|G|1198
9YDD|1|E|G|1199
9YDD|1|E|G|1200
9YDD|1|E|G|1201
9YDD|1|E|A|1202
9YDD|1|E|A|1203
9YDD|1|E|A|1204
9YDD|1|E|C|1205
9YDD|1|E|U|1206
9YDD|1|E|C|1207
9YDD|1|E|A|1208
9YDD|1|E|C|1209
*
9YDD|1|E|G|1454
9YDD|1|E|G|1455
9YDD|1|E|C|1456
9YDD|1|E|C|1457
9YDD|1|E|G|1458

Current chains

Chain E

18S rRNA

Nearby chains

Chain SE

40S ribosomal protein S15

Chain SH

40S ribosomal protein S18-A

Chain SJ

40S ribosomal protein S20

Chain SK

40S ribosomal protein S25-A

Chain SM

40S ribosomal protein S29-A

Chain SN

Ubiquitin-40S ribosomal protein S31

Chain m

Transfer RNA; tRNA