IL_5T62_083

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

CCAG*CG

Length

6 nucleotides

Bulged bases

5T62|1|A|C|2197

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_5T62_083 not in the Motif Atlas

Homologous match to IL_5TBW_084

Geometric discrepancy: 0.1265

The information below is about IL_5TBW_084

Detailed Annotation

Major groove intercalation

Broad Annotation

No text annotation

Motif group

IL_88739.5

Basepair signature

cWW-L-cWW

Number of instances in this motif group

12

Unit IDs

5T62|1|A|C|2196
5T62|1|A|C|2197
5T62|1|A|A|2198
5T62|1|A|G|2199
*
5T62|1|A|C|2245
5T62|1|A|G|2246

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain D

60S ribosomal protein L2-A

Chain V

60S ribosomal export protein NMD3