J4_6IP5_014

3D structure

PDB id

6IP5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the CMV-stalled human 80S ribosome (Structure ii)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

UUGG*UUC*GAGGUCC*GA

Length

16 nucleotides

Bulged bases

6IP5|1|zy|U|8, 6IP5|1|zy|U|46, 6IP5|1|zy|C|47

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_6IP5_014 not in the Motif Atlas

Homologous match to J4_1IL2_001

Geometric discrepancy: 0.2615

The information below is about J4_1IL2_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

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

Number of instances in this motif group

48

Unit IDs

6IP5|1|zy|U|7
6IP5|1|zy|U|8
6IP5|1|zy|G|9
6IP5|1|zy|G|10
*
6IP5|1|zy|U|24
6IP5|1|zy|U|25
6IP5|1|zy|C|26
*
6IP5|1|zy|G|42
6IP5|1|zy|A|43
6IP5|1|zy|G|44
6IP5|1|zy|G|45
6IP5|1|zy|U|46
6IP5|1|zy|C|47
6IP5|1|zy|C|48
*
6IP5|1|zy|G|64
6IP5|1|zy|A|65

Current chains

Chain zy

P-site tRNA

Nearby chains

Chain 1A

Large subunit ribosomal RNA; LSU rRNA

Chain 2D

60S ribosomal protein L10-like

Chain 2m

Small subunit ribosomal RNA; SSU rRNA