HL_3J6X_041

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

UUGGAACA

Length

8 nucleotides

Bulged bases

3J6X|1|2S|C|200

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

HL_3J6X_041 not in the Motif Atlas

Homologous match to HL_8C3A_005

Geometric discrepancy: 0.2782

The information below is about HL_8C3A_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

3J6X|1|2S|U|194
3J6X|1|2S|U|195
3J6X|1|2S|G|196
3J6X|1|2S|G|197
3J6X|1|2S|A|198
3J6X|1|2S|A|199
3J6X|1|2S|C|200
3J6X|1|2S|A|201

Current chains

Chain 2S

25S ribosomal RNA

Nearby chains

Chain 66

60S ribosomal protein L26

Chain L4

60S ribosomal protein L4