IL_5T62_086

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

GAAUG*CGC

Length

8 nucleotides

Bulged bases

5T62|1|A|U|2209

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_086 not in the Motif Atlas

Geometric match to IL_5TBW_087

Geometric discrepancy: 0.2465

The information below is about IL_5TBW_087

Detailed Annotation

Major groove platform with extra pair

Broad Annotation

Major groove platform

Motif group

IL_63450.5

Basepair signature

cWW-cHS-cWW-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5T62|1|A|G|2206
5T62|1|A|A|2207
5T62|1|A|A|2208
5T62|1|A|U|2209
5T62|1|A|G|2210
*
5T62|1|A|C|2235
5T62|1|A|G|2236
5T62|1|A|C|2237

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain V

60S ribosomal export protein NMD3