J5_8IFD_009

3D structure

PDB id

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

Description

Dibekacin-added human 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.59 Å

Loop

Sequence

CGCUCGCUCCUCUCCCACUU*AUGCCGACGGG*UGCAUU*ACCUCGGGCCGAU*ACG

Length

53 nucleotides

Bulged bases

8IFD|1|2m|U|128, 8IFD|1|2m|C|129, 8IFD|1|2m|G|130, 8IFD|1|2m|C|131, 8IFD|1|2m|U|132, 8IFD|1|2m|C|133, 8IFD|1|2m|C|134, 8IFD|1|2m|U|135, 8IFD|1|2m|C|136, 8IFD|1|2m|U|137, 8IFD|1|2m|C|138, 8IFD|1|2m|C|139, 8IFD|1|2m|C|140, 8IFD|1|2m|C|142, 8IFD|1|2m|A|181, 8IFD|1|2m|G|183, 8IFD|1|2m|U|305, 8IFD|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

8IFD|1|2m|C|125
8IFD|1|2m|G|126
8IFD|1|2m|C|127
8IFD|1|2m|U|128
8IFD|1|2m|C|129
8IFD|1|2m|G|130
8IFD|1|2m|C|131
8IFD|1|2m|U|132
8IFD|1|2m|C|133
8IFD|1|2m|C|134
8IFD|1|2m|U|135
8IFD|1|2m|C|136
8IFD|1|2m|U|137
8IFD|1|2m|C|138
8IFD|1|2m|C|139
8IFD|1|2m|C|140
8IFD|1|2m|A|141
8IFD|1|2m|C|142
8IFD|1|2m|U|143
8IFD|1|2m|U|144
*
8IFD|1|2m|A|175
8IFD|1|2m|U|176
8IFD|1|2m|G|177
8IFD|1|2m|C|178
8IFD|1|2m|C|179
8IFD|1|2m|G|180
8IFD|1|2m|A|181
8IFD|1|2m|C|182
8IFD|1|2m|G|183
8IFD|1|2m|G|184
8IFD|1|2m|G|185
*
8IFD|1|2m|U|214
8IFD|1|2m|G|215
8IFD|1|2m|C|216
8IFD|1|2m|A|217
8IFD|1|2m|U|218
8IFD|1|2m|U|219
*
8IFD|1|2m|A|302
8IFD|1|2m|C|303
8IFD|1|2m|C|304
8IFD|1|2m|U|305
8IFD|1|2m|C|306
8IFD|1|2m|G|307
8IFD|1|2m|G|308
8IFD|1|2m|G|309
8IFD|1|2m|C|310
8IFD|1|2m|C|311
8IFD|1|2m|G|312
8IFD|1|2m|A|313
8IFD|1|2m|U|314
*
8IFD|1|2m|A|336
8IFD|1|2m|C|337
8IFD|1|2m|G|338

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2q

40S ribosomal protein S4, X isoform

Chain 2t

40S ribosomal protein S8

Chain 3H

40S ribosomal protein S6