J3_8RJC_010

3D structure

PDB id

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

Description

Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-TRAP, open conformation 1

Experimental method

ELECTRON MICROSCOPY

Resolution

2.90061 Å

Loop

Sequence

GGGG*CGCUUCUGGCGCCAAG*CGAC

Length

24 nucleotides

Bulged bases

8RJC|1|K|C|4116, 8RJC|1|K|U|4117, 8RJC|1|K|U|4118, 8RJC|1|K|G|4121

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

J3_8RJC_010 not in the Motif Atlas

Homologous match to J3_8P9A_060

Geometric discrepancy: 0.2644

The information below is about J3_8P9A_060

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_28639.1

Basepair signature

cWW-tSS-F-cWW-F-cWW-F

Number of instances in this motif group

2

Unit IDs

8RJC|1|K|G|4091
8RJC|1|K|G|4092
8RJC|1|K|G|4093
8RJC|1|K|G|4094
*
8RJC|1|K|C|4114
8RJC|1|K|G|4115
8RJC|1|K|C|4116
8RJC|1|K|U|4117
8RJC|1|K|U|4118
8RJC|1|K|C|4119
8RJC|1|K|U|4120
8RJC|1|K|G|4121
8RJC|1|K|G|4122
8RJC|1|K|C|4123
8RJC|1|K|G|4124
8RJC|1|K|C|4125
8RJC|1|K|C|4126
8RJC|1|K|A|4127
8RJC|1|K|A|4128
8RJC|1|K|G|4129
*
8RJC|1|K|C|4155
8RJC|1|K|G|4156
8RJC|1|K|A|4157
8RJC|1|K|C|4158

Current chains

Chain K

28S rRNA

Nearby chains

Chain A

Ribosomal protein L8

Chain G

60S ribosomal protein L7a

Chain X

Ribosomal_L23eN domain-containing protein

Chain Z

60S ribosomal protein L27

Chain c

60S ribosomal protein L30

Chain g

60S ribosomal protein L34

Chain p

60S ribosomal protein L37a