IL_7SYX_021

3D structure

PDB id

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

Description

Structure of the delta dII IRES eIF5B-containing 48S initiation complex, closed conformation. Structure 15(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

UAUCAA*UGACCACG

Length

14 nucleotides

Bulged bases

7SYX|1|2|U|361, 7SYX|1|2|C|399

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

IL_7SYX_021 not in the Motif Atlas

Geometric match to IL_5J7L_014

Geometric discrepancy: 0.1421

The information below is about IL_5J7L_014

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.3

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

5

Unit IDs

7SYX|1|2|U|359
7SYX|1|2|A|360
7SYX|1|2|U|361
7SYX|1|2|C|362
7SYX|1|2|A|363
7SYX|1|2|A|364
*
7SYX|1|2|U|396
7SYX|1|2|G|397
7SYX|1|2|A|398
7SYX|1|2|C|399
7SYX|1|2|C|400
7SYX|1|2|A|401
7SYX|1|2|C|402
7SYX|1|2|G|403

Current chains

Chain 2

18S rRNA

Nearby chains

Chain J

eS8

Chain M

uS17

Chain Y

uS12