J3_6D9J_008

3D structure

PDB id

6D9J (explore in PDB, NAKB, or RNA 3D Hub)

Description

Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

CUUAAUUU*GGGAAACCUCAC*GGCUG

Length

25 nucleotides

Bulged bases

6D9J|1|2|A|1240, 6D9J|1|2|G|1256, 6D9J|1|2|A|1258, 6D9J|1|2|A|1260, 6D9J|1|2|C|1261

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_6D9J_008 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.1841

The information below is about J3_8C3A_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_83516.3

Basepair signature

cWW-F-F-F-tWW-F-tSH-tSS-cSS-F-F-F-F-F-cWW-cWW-F-F-F

Number of instances in this motif group

4

Unit IDs

6D9J|1|2|C|1237
6D9J|1|2|U|1238
6D9J|1|2|U|1239
6D9J|1|2|A|1240
6D9J|1|2|A|1241
6D9J|1|2|U|1242
6D9J|1|2|U|1243
6D9J|1|2|U|1244
*
6D9J|1|2|G|1255
6D9J|1|2|G|1256
6D9J|1|2|G|1257
6D9J|1|2|A|1258
6D9J|1|2|A|1259
6D9J|1|2|A|1260
6D9J|1|2|C|1261
6D9J|1|2|C|1262
6D9J|1|2|U|1263
6D9J|1|2|C|1264
6D9J|1|2|A|1265
6D9J|1|2|C|1266
*
6D9J|1|2|G|1516
6D9J|1|2|G|1517
6D9J|1|2|C|1518
6D9J|1|2|U|1519
6D9J|1|2|G|1520

Current chains

Chain 2

18S rRNA

Nearby chains

Chain 3

Transfer RNA; tRNA

Chain LL

eS10

Chain QQ

uS19

Chain TT

uS13

Chain VV

uS10

Chain ee

eS29