IL_3J6X_170

3D structure

PDB id

3J6X (explore in PDB, NAKB, or RNA 3D Hub)

Description

S. cerevisiae 80S ribosome bound with Taura syndrome virus (TSV) IRES, 5 degree rotation (Class II)

Experimental method

ELECTRON MICROSCOPY

Resolution

6.1 Å

Loop

Sequence

GAAUG*CGC

Length

8 nucleotides

Bulged bases

3J6X|1|2S|U|2209

QA status

Unknown status

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_3J6X_170 not in the Motif Atlas

Geometric match to IL_5TBW_087

Geometric discrepancy: 0.2067

The information below is about IL_5TBW_087

Detailed Annotation

Major groove platform with extra pair

Broad Annotation

Major groove platform

Motif group

IL_63450.5

Basepair signature

cWW-cHS-cWW-cWW-cWW

Number of instances in this motif group

7

Unit IDs

3J6X|1|2S|G|2206
3J6X|1|2S|A|2207
3J6X|1|2S|A|2208
3J6X|1|2S|U|2209
3J6X|1|2S|G|2210
*
3J6X|1|2S|C|2235
3J6X|1|2S|G|2236
3J6X|1|2S|C|2237

Current chains

Chain 2S

25S ribosomal RNA

Nearby chains

Chain 1S

Small subunit ribosomal RNA; SSU rRNA

Chain L2

60S ribosomal protein L2