J3_6IP8_037

3D structure

PDB id

6IP8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

GGGGGCG*CUCGCUUCUGGCGCCAAG*CGAC

Length

29 nucleotides

Bulged bases

6IP8|1|1A|G|4115, 6IP8|1|1A|C|4116, 6IP8|1|1A|U|4117, 6IP8|1|1A|U|4118, 6IP8|1|1A|C|4119, 6IP8|1|1A|U|4120, 6IP8|1|1A|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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

6IP8|1|1A|G|4091
6IP8|1|1A|G|4092
6IP8|1|1A|G|4093
6IP8|1|1A|G|4094
6IP8|1|1A|G|4095
6IP8|1|1A|C|4096
6IP8|1|1A|G|4097
*
6IP8|1|1A|C|4112
6IP8|1|1A|U|4113
6IP8|1|1A|C|4114
6IP8|1|1A|G|4115
6IP8|1|1A|C|4116
6IP8|1|1A|U|4117
6IP8|1|1A|U|4118
6IP8|1|1A|C|4119
6IP8|1|1A|U|4120
6IP8|1|1A|G|4121
6IP8|1|1A|G|4122
6IP8|1|1A|C|4123
6IP8|1|1A|G|4124
6IP8|1|1A|C|4125
6IP8|1|1A|C|4126
6IP8|1|1A|A|4127
6IP8|1|1A|A|4128
6IP8|1|1A|G|4129
*
6IP8|1|1A|C|4155
6IP8|1|1A|G|4156
6IP8|1|1A|A|4157
6IP8|1|1A|C|4158

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1D

60S ribosomal protein L8

Chain 2B

60S ribosomal protein L7a

Chain 2R

60S ribosomal protein L23a

Chain 2T

60S ribosomal protein L27

Chain 2W

60S ribosomal protein L30

Chain 2a

60S ribosomal protein L34

Chain 2j

60S ribosomal protein L37a