J3_7SYQ_006

3D structure

PDB id

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

Description

Structure of the wt IRES and 40S ribosome ternary complex, open conformation. Structure 11(wt)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

CCAG*CCAGUAA*UGAUUAAG

Length

19 nucleotides

Bulged bases

None detected

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_7SYQ_006 not in the Motif Atlas

Homologous match to J3_8C3A_038

Geometric discrepancy: 0.2504

The information below is about J3_8C3A_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.2

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

7SYQ|1|2|C|1218
7SYQ|1|2|C|1219
7SYQ|1|2|A|1220
7SYQ|1|2|G|1221
*
7SYQ|1|2|C|1645
7SYQ|1|2|C|1646
7SYQ|1|2|A|1647
7SYQ|1|2|G|1648
7SYQ|1|2|U|1649
7SYQ|1|2|A|1650
7SYQ|1|2|A|1651
*
7SYQ|1|2|U|1673
7SYQ|1|2|G|1674
7SYQ|1|2|A|1675
7SYQ|1|2|U|1676
7SYQ|1|2|U|1677
7SYQ|1|2|A|1678
7SYQ|1|2|A|1679
7SYQ|1|2|G|1680

Current chains

Chain 2

18S rRNA

Nearby chains

Chain G

uS7

Chain R

uS9

Chain d

eS28