J4_5T62_007

3D structure

PDB id

5T62 (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-Tif6-Lsg1 Complex

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

5T62|1|A|U|2269, 5T62|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_5T62_007 not in the Motif Atlas

Homologous match to J4_8P9A_018

Geometric discrepancy: 0.4186

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

5T62|1|A|C|2192
5T62|1|A|U|2193
5T62|1|A|G|2194
*
5T62|1|A|C|2248
5T62|1|A|G|2249
*
5T62|1|A|C|2267
5T62|1|A|U|2268
5T62|1|A|U|2269
5T62|1|A|A|2270
5T62|1|A|A|2271
5T62|1|A|G|2272
5T62|1|A|G|2273
5T62|1|A|U|2274
5T62|1|A|A|2275
5T62|1|A|G|2276
*
5T62|1|A|U|2310
5T62|1|A|G|2311
5T62|1|A|A|2312
5T62|1|A|A|2313
5T62|1|A|U|2314
5T62|1|A|G|2315

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain D

60S ribosomal protein L2-A

Chain V

60S ribosomal export protein NMD3

Chain W

Large subunit GTPase 1