J3_5T6R_017

3D structure

PDB id

5T6R (explore in PDB, NAKB, or RNA 3D Hub)

Description

Nmd3 is a structural mimic of eIF5A, and activates the cpGTPase Lsg1 during 60S ribosome biogenesis: 60S-Nmd3 Complex

Experimental method

ELECTRON MICROSCOPY

Resolution

4.2 Å

Loop

Sequence

CAAAUUUGAAAU*AGUUGUAAUUUGGAGAG*UUCGAAG

Length

36 nucleotides

Bulged bases

5T6R|1|A|U|117, 5T6R|1|A|G|120, 5T6R|1|A|A|121, 5T6R|1|A|U|147, 5T6R|1|A|G|156

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

5T6R|1|A|C|113
5T6R|1|A|A|114
5T6R|1|A|A|115
5T6R|1|A|A|116
5T6R|1|A|U|117
5T6R|1|A|U|118
5T6R|1|A|U|119
5T6R|1|A|G|120
5T6R|1|A|A|121
5T6R|1|A|A|122
5T6R|1|A|A|123
5T6R|1|A|U|124
*
5T6R|1|A|A|144
5T6R|1|A|G|145
5T6R|1|A|U|146
5T6R|1|A|U|147
5T6R|1|A|G|148
5T6R|1|A|U|149
5T6R|1|A|A|150
5T6R|1|A|A|151
5T6R|1|A|U|152
5T6R|1|A|U|153
5T6R|1|A|U|154
5T6R|1|A|G|155
5T6R|1|A|G|156
5T6R|1|A|A|157
5T6R|1|A|G|158
5T6R|1|A|A|159
5T6R|1|A|G|160
*
5T6R|1|A|U|261
5T6R|1|A|U|262
5T6R|1|A|C|263
5T6R|1|A|G|264
5T6R|1|A|A|265
5T6R|1|A|A|266
5T6R|1|A|G|267

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain C

5.8S ribosomal RNA; 5.8S rRNA

Chain J

60S ribosomal protein L8-A

Chain N

60S ribosomal protein L13-A

Chain a

60S ribosomal protein L15-A

Chain u

60S ribosomal protein L35-A

Chain v

60S ribosomal protein L36-A