HL_4V6N_122

3D structure

PDB id

4V6N (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structural characterization of mRNA-tRNA translocation intermediates (50S ribosome of class2 of the six classes)

Experimental method

ELECTRON MICROSCOPY

Resolution

12.1 Å

Loop

Sequence

G(5MU)(PSU)CGAGUC

Length

9 nucleotides

Bulged bases

4V6N|1|BB|G|59, 4V6N|1|BB|U|60

QA status

Modified nucleotides: 5MU, PSU

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_4V6N_122 not in the Motif Atlas

Homologous match to HL_1H4S_003

Geometric discrepancy: 0.3981

The information below is about HL_1H4S_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.8

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

140

Unit IDs

4V6N|1|BB|G|53
4V6N|1|BB|5MU|54
4V6N|1|BB|PSU|55
4V6N|1|BB|C|56
4V6N|1|BB|G|57
4V6N|1|BB|A|58
4V6N|1|BB|G|59
4V6N|1|BB|U|60
4V6N|1|BB|C|61

Current chains

Chain BB

A site tRNA

Nearby chains

Chain AB

Large subunit ribosomal RNA; LSU rRNA

Chain AO

50S ribosomal protein L16