IL_5T6R_088

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

GCGG*UAC

Length

7 nucleotides

Bulged bases

None detected

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_5T6R_088 not in the Motif Atlas

Homologous match to IL_5TBW_091

Geometric discrepancy: 0.1001

The information below is about IL_5TBW_091

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

5T6R|1|A|G|2391
5T6R|1|A|C|2392
5T6R|1|A|G|2393
5T6R|1|A|G|2394
*
5T6R|1|A|U|2986
5T6R|1|A|A|2987
5T6R|1|A|C|2988

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain E

60S ribosomal protein L3

Chain b

60S ribosomal protein L16-A