J4_5T62_006

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

GACUG*CAUAG*UGAUU*AUUAAC

Length

21 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

J4_5T62_006 not in the Motif Atlas

Homologous match to J4_8P9A_017

Geometric discrepancy: 0.0819

The information below is about J4_8P9A_017

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_78485.1

Basepair signature

cWW-tSW-F-F-tHS-F-cWW-F-cWW-F-F-tHS-F-cWW

Number of instances in this motif group

6

Unit IDs

5T62|1|A|G|2130
5T62|1|A|A|2131
5T62|1|A|C|2132
5T62|1|A|U|2133
5T62|1|A|G|2134
*
5T62|1|A|C|2146
5T62|1|A|A|2147
5T62|1|A|U|2148
5T62|1|A|A|2149
5T62|1|A|G|2150
*
5T62|1|A|U|2186
5T62|1|A|G|2187
5T62|1|A|A|2188
5T62|1|A|U|2189
5T62|1|A|U|2190
*
5T62|1|A|A|2317
5T62|1|A|U|2318
5T62|1|A|U|2319
5T62|1|A|A|2320
5T62|1|A|A|2321
5T62|1|A|C|2322

Current chains

Chain A

25S Ribosomal RNA

Nearby chains

Chain D

60S ribosomal protein L2-A

Chain R

60S ribosomal protein L43-A