J5_6IP5_009

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

GUCGCUCGCUCCUCUCCCACUU*AUGCCGACGGG*UGCAUU*ACCUCGGGCCGAU*ACGACCC

Length

59 nucleotides

Bulged bases

6IP5|1|2m|U|128, 6IP5|1|2m|C|129, 6IP5|1|2m|G|130, 6IP5|1|2m|C|131, 6IP5|1|2m|U|132, 6IP5|1|2m|C|133, 6IP5|1|2m|C|134, 6IP5|1|2m|U|135, 6IP5|1|2m|C|136, 6IP5|1|2m|U|137, 6IP5|1|2m|C|138, 6IP5|1|2m|C|139, 6IP5|1|2m|C|140, 6IP5|1|2m|C|142, 6IP5|1|2m|G|183, 6IP5|1|2m|U|305, 6IP5|1|2m|G|308

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

6IP5|1|2m|G|123
6IP5|1|2m|U|124
6IP5|1|2m|C|125
6IP5|1|2m|G|126
6IP5|1|2m|C|127
6IP5|1|2m|U|128
6IP5|1|2m|C|129
6IP5|1|2m|G|130
6IP5|1|2m|C|131
6IP5|1|2m|U|132
6IP5|1|2m|C|133
6IP5|1|2m|C|134
6IP5|1|2m|U|135
6IP5|1|2m|C|136
6IP5|1|2m|U|137
6IP5|1|2m|C|138
6IP5|1|2m|C|139
6IP5|1|2m|C|140
6IP5|1|2m|A|141
6IP5|1|2m|C|142
6IP5|1|2m|U|143
6IP5|1|2m|U|144
*
6IP5|1|2m|A|175
6IP5|1|2m|U|176
6IP5|1|2m|G|177
6IP5|1|2m|C|178
6IP5|1|2m|C|179
6IP5|1|2m|G|180
6IP5|1|2m|A|181
6IP5|1|2m|C|182
6IP5|1|2m|G|183
6IP5|1|2m|G|184
6IP5|1|2m|G|185
*
6IP5|1|2m|U|214
6IP5|1|2m|G|215
6IP5|1|2m|C|216
6IP5|1|2m|A|217
6IP5|1|2m|U|218
6IP5|1|2m|U|219
*
6IP5|1|2m|A|302
6IP5|1|2m|C|303
6IP5|1|2m|C|304
6IP5|1|2m|U|305
6IP5|1|2m|C|306
6IP5|1|2m|G|307
6IP5|1|2m|G|308
6IP5|1|2m|G|309
6IP5|1|2m|C|310
6IP5|1|2m|C|311
6IP5|1|2m|G|312
6IP5|1|2m|A|313
6IP5|1|2m|U|314
*
6IP5|1|2m|A|336
6IP5|1|2m|C|337
6IP5|1|2m|G|338
6IP5|1|2m|A|339
6IP5|1|2m|C|340
6IP5|1|2m|C|341
6IP5|1|2m|C|342

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2Q

60S ribosomal protein L24

Chain 2q

40S ribosomal protein S4, X isoform

Chain 2t

40S ribosomal protein S8

Chain 3H

40S ribosomal protein S6