IL_6SV4_511

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

UA*UAAG

Length

6 nucleotides

Bulged bases

6SV4|1|YQ|A|2911

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_511 not in the Motif Atlas

Homologous match to IL_8C3A_119

Geometric discrepancy: 0.2233

The information below is about IL_8C3A_119

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_95601.6

Basepair signature

cWW-L-cWW

Number of instances in this motif group

9

Unit IDs

6SV4|1|YQ|U|2891
6SV4|1|YQ|A|2892
*
6SV4|1|YQ|U|2909
6SV4|1|YQ|A|2910
6SV4|1|YQ|A|2911
6SV4|1|YQ|G|2912

Current chains

Chain YQ

25S rRNA

Nearby chains

Chain XD

60S ribosomal protein L9-A

Chain XO

Ubiquitin-60S ribosomal protein L40

Chain XU

60S ribosomal protein L16-A