IL_6SV4_139

3D structure

PDB id

6SV4 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The cryo-EM structure of SDD1-stalled collided trisome.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.3 Å

Loop

Sequence

GGAGUAUG*UGAAAC

Length

14 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

IL_6SV4_139 not in the Motif Atlas

Geometric match to IL_4LFB_034

Geometric discrepancy: 0.1142

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_84044.1

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

5

Unit IDs

6SV4|1|2b|G|1111
6SV4|1|2b|G|1112
6SV4|1|2b|A|1113
6SV4|1|2b|G|1114
6SV4|1|2b|U|1115
6SV4|1|2b|A|1116
6SV4|1|2b|U|1117
6SV4|1|2b|G|1118
*
6SV4|1|2b|U|1129
6SV4|1|2b|G|1130
6SV4|1|2b|A|1131
6SV4|1|2b|A|1132
6SV4|1|2b|A|1133
6SV4|1|2b|C|1134

Current chains

Chain 2b

18S rRNA

Nearby chains

Chain XS

60S ribosomal protein L41-B

Chain cb

40S ribosomal protein S23-A