IL_5T6R_080

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

CGAUGG*UGUUGACG

Length

14 nucleotides

Bulged bases

5T6R|1|A|U|2159, 5T6R|1|A|U|2175, 5T6R|1|A|C|2179

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

IL_5T6R_080 not in the Motif Atlas

Homologous match to IL_5TBW_083

Geometric discrepancy: 0.0817

The information below is about IL_5TBW_083

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_64509.1

Basepair signature

cWW-tWW-tWW-tSS-L-cWW

Number of instances in this motif group

2

Unit IDs

5T6R|1|A|C|2156
5T6R|1|A|G|2157
5T6R|1|A|A|2158
5T6R|1|A|U|2159
5T6R|1|A|G|2160
5T6R|1|A|G|2161
*
5T6R|1|A|U|2173
5T6R|1|A|G|2174
5T6R|1|A|U|2175
5T6R|1|A|U|2176
5T6R|1|A|G|2177
5T6R|1|A|A|2178
5T6R|1|A|C|2179
5T6R|1|A|G|2180

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain D

60S ribosomal protein L2-A

Chain R

60S ribosomal protein L43-A