IL_5MDY_016

3D structure

PDB id

5MDY (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.35 Å

Loop

Sequence

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

5MDY|1|1|G|801, 5MDY|1|1|G|805

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_5MDY_016 not in the Motif Atlas

Homologous match to IL_7RQB_018

Geometric discrepancy: 0.0727

The information below is about IL_7RQB_018

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_17470.6

Basepair signature

cWW-tWW-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

5MDY|1|1|G|674
5MDY|1|1|A|675
5MDY|1|1|A|676
5MDY|1|1|A|677
5MDY|1|1|C|678
*
5MDY|1|1|G|799
5MDY|1|1|A|800
5MDY|1|1|G|801
5MDY|1|1|A|802
5MDY|1|1|U|803
5MDY|1|1|A|804
5MDY|1|1|G|805
5MDY|1|1|C|806

Current chains

Chain 1

23S ribosomal RNA

Nearby chains

Chain D

50S ribosomal protein L4

Chain L

50S ribosomal protein L15