HL_5T6R_032

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

AGCAGUU

Length

7 nucleotides

Bulged bases

5T6R|1|A|G|1507, 5T6R|1|A|U|1511

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

HL_5T6R_032 not in the Motif Atlas

Homologous match to HL_5TBW_032

Geometric discrepancy: 0.1235

The information below is about HL_5TBW_032

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_40756.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

14

Unit IDs

5T6R|1|A|A|1506
5T6R|1|A|G|1507
5T6R|1|A|C|1508
5T6R|1|A|A|1509
5T6R|1|A|G|1510
5T6R|1|A|U|1511
5T6R|1|A|U|1512

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain c

60S ribosomal protein L17-A

Chain e

60S ribosomal protein L19-A

Chain y

60S ribosomal protein L39