J4_8CDL_010

3D structure

PDB id

8CDL (explore in PDB, NAKB, or RNA 3D Hub)

Description

80S S. cerevisiae ribosome with ligands in hybrid-2 pre-translocation (PRE-H2) complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.72 Å

Loop

Sequence

UUAG*CGC*GAGGUCC*GA

Length

16 nucleotides

Bulged bases

8CDL|1|Bb|U|8, 8CDL|1|Bb|U|47, 8CDL|1|Bb|C|48

QA status

Valid loop

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_8CDL_010 not in the Motif Atlas

Homologous match to J4_3WQY_001

Geometric discrepancy: 0.2447

The information below is about J4_3WQY_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

8CDL|1|Bb|U|7
8CDL|1|Bb|U|8
8CDL|1|Bb|A|9
8CDL|1|Bb|G|10
*
8CDL|1|Bb|C|25
8CDL|1|Bb|G|26
8CDL|1|Bb|C|27
*
8CDL|1|Bb|G|43
8CDL|1|Bb|A|44
8CDL|1|Bb|G|45
8CDL|1|Bb|G|46
8CDL|1|Bb|U|47
8CDL|1|Bb|C|48
8CDL|1|Bb|C|49
*
8CDL|1|Bb|G|65
8CDL|1|Bb|A|66

Current chains

Chain Bb

Transfer RNA Phe

Nearby chains

Chain AA

Large subunit ribosomal RNA; LSU rRNA

Chain MM

60S ribosomal protein L10

Chain c

Small subunit ribosomal RNA; SSU rRNA