J3_7SYU_008

3D structure

PDB id

7SYU (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the delta dII IRES w/o eIF2 48S initiation complex, closed conformation. Structure 13(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 Å

Loop

Sequence

CUUAAUUU*GGGAAACCUCAC*GGCUG

Length

25 nucleotides

Bulged bases

7SYU|1|2|G|1256, 7SYU|1|2|A|1258, 7SYU|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_7SYU_008 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.1214

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

7SYU|1|2|C|1237
7SYU|1|2|U|1238
7SYU|1|2|U|1239
7SYU|1|2|A|1240
7SYU|1|2|A|1241
7SYU|1|2|U|1242
7SYU|1|2|U|1243
7SYU|1|2|U|1244
*
7SYU|1|2|G|1255
7SYU|1|2|G|1256
7SYU|1|2|G|1257
7SYU|1|2|A|1258
7SYU|1|2|A|1259
7SYU|1|2|A|1260
7SYU|1|2|C|1261
7SYU|1|2|C|1262
7SYU|1|2|U|1263
7SYU|1|2|C|1264
7SYU|1|2|A|1265
7SYU|1|2|C|1266
*
7SYU|1|2|G|1516
7SYU|1|2|G|1517
7SYU|1|2|C|1518
7SYU|1|2|U|1519
7SYU|1|2|G|1520

Current chains

Chain 2

18S rRNA

Nearby chains

Chain Q

uS19

Chain T

uS13

Chain V

uS10

Chain e

eS29