HL_4V6S_105

3D structure

PDB id

4V6S (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structural characterization of mRNA-tRNA translocation intermediates (class 3 of the six classes)

Experimental method

ELECTRON MICROSCOPY

Resolution

13.1 Å

Loop

Sequence

G(5MU)(PSU)CAAAUC

Length

9 nucleotides

Bulged bases

None detected

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_4V6S_105 not in the Motif Atlas

Homologous match to HL_1B23_003

Geometric discrepancy: 0.2264

The information below is about HL_1B23_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.2

Basepair signature

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

Number of instances in this motif group

135

Unit IDs

4V6S|1|BC|G|54
4V6S|1|BC|5MU|55
4V6S|1|BC|PSU|56
4V6S|1|BC|C|57
4V6S|1|BC|A|58
4V6S|1|BC|A|59
4V6S|1|BC|A|60
4V6S|1|BC|U|61
4V6S|1|BC|C|62

Current chains

Chain BC

P site tRNA

Nearby chains

Chain AB

Large subunit ribosomal RNA; LSU rRNA

Chain AG

50S ribosomal protein L5

Chain AO

50S ribosomal protein L16