J3_6P5J_008

3D structure

PDB id

6P5J (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

CUUAAUUU*GGGAAACCUCAC*GGCUG

Length

25 nucleotides

Bulged bases

6P5J|1|2|G|1256, 6P5J|1|2|A|1258, 6P5J|1|2|A|1260

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_6P5J_008 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.1458

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

6P5J|1|2|C|1237
6P5J|1|2|U|1238
6P5J|1|2|U|1239
6P5J|1|2|A|1240
6P5J|1|2|A|1241
6P5J|1|2|U|1242
6P5J|1|2|U|1243
6P5J|1|2|U|1244
*
6P5J|1|2|G|1255
6P5J|1|2|G|1256
6P5J|1|2|G|1257
6P5J|1|2|A|1258
6P5J|1|2|A|1259
6P5J|1|2|A|1260
6P5J|1|2|C|1261
6P5J|1|2|C|1262
6P5J|1|2|U|1263
6P5J|1|2|C|1264
6P5J|1|2|A|1265
6P5J|1|2|C|1266
*
6P5J|1|2|G|1516
6P5J|1|2|G|1517
6P5J|1|2|C|1518
6P5J|1|2|U|1519
6P5J|1|2|G|1520

Current chains

Chain 2

18S rRNA

Nearby chains

Chain 1

IAPV-IRES

Chain Q

uS19

Chain T

uS13

Chain V

uS10

Chain e

eS29