J4_4V6K_019

3D structure

PDB id

4V6K (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structural insights into cognate vs. near-cognate discrimination during decoding.

Experimental method

ELECTRON MICROSCOPY

Resolution

8.25 Å

Loop

Sequence

A(4SU)AG*CAG*CGU(7MG)(3AU)CC*GU

Length

16 nucleotides

Bulged bases

4V6K|1|BB|4SU|8, 4V6K|1|BB|3AU|47, 4V6K|1|BB|C|48

QA status

Modified nucleotides: 4SU, 7MG, 3AU

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

J4_4V6K_019 not in the Motif Atlas

Homologous match to J4_5HR6_001

Geometric discrepancy: 0.4046

The information below is about J4_5HR6_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_70449.29

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

54

Unit IDs

4V6K|1|BB|A|7
4V6K|1|BB|4SU|8
4V6K|1|BB|A|9
4V6K|1|BB|G|10
*
4V6K|1|BB|C|25
4V6K|1|BB|A|26
4V6K|1|BB|G|27
*
4V6K|1|BB|C|43
4V6K|1|BB|G|44
4V6K|1|BB|U|45
4V6K|1|BB|7MG|46
4V6K|1|BB|3AU|47
4V6K|1|BB|C|48
4V6K|1|BB|C|49
*
4V6K|1|BB|G|65
4V6K|1|BB|U|66

Current chains

Chain BB

A/T-site tRNA Phe

Nearby chains

Chain AB

Large subunit ribosomal RNA; LSU rRNA

Chain BC

Elongation factor Tu 2