J4_5T6R_007

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

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

5T6R|1|A|U|2269, 5T6R|1|A|U|2314

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

J4_5T6R_007 not in the Motif Atlas

Homologous match to J4_8P9A_018

Geometric discrepancy: 0.1826

The information below is about J4_8P9A_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_42306.1

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

5

Unit IDs

5T6R|1|A|C|2192
5T6R|1|A|U|2193
5T6R|1|A|G|2194
*
5T6R|1|A|C|2248
5T6R|1|A|G|2249
*
5T6R|1|A|C|2267
5T6R|1|A|U|2268
5T6R|1|A|U|2269
5T6R|1|A|A|2270
5T6R|1|A|A|2271
5T6R|1|A|G|2272
5T6R|1|A|G|2273
5T6R|1|A|U|2274
5T6R|1|A|A|2275
5T6R|1|A|G|2276
*
5T6R|1|A|U|2310
5T6R|1|A|G|2311
5T6R|1|A|A|2312
5T6R|1|A|A|2313
5T6R|1|A|U|2314
5T6R|1|A|G|2315

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain D

60S ribosomal protein L2-A

Chain V

Maltose binding protein, 60S ribosomal export protein Nmd3 fusion