J4_5MDY_013

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

GAG*CAUAACG*CCAAAG*UGC

Length

19 nucleotides

Bulged bases

5MDY|1|2|C|183, 5MDY|1|2|A|197

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_5MDY_013 not in the Motif Atlas

Homologous match to J4_5J7L_002

Geometric discrepancy: 0.0806

The information below is about J4_5J7L_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_01665.1

Basepair signature

cWW-tWH-F-tWH-cWW-tSS-F-tHW-tSS-cWW-cWW

Number of instances in this motif group

1

Unit IDs

5MDY|1|2|G|142
5MDY|1|2|A|143
5MDY|1|2|G|144
*
5MDY|1|2|C|178
5MDY|1|2|A|179
5MDY|1|2|U|180
5MDY|1|2|A|181
5MDY|1|2|A|182
5MDY|1|2|C|183
5MDY|1|2|G|184
*
5MDY|1|2|C|193
5MDY|1|2|C|194
5MDY|1|2|A|195
5MDY|1|2|A|196
5MDY|1|2|A|197
5MDY|1|2|G|198
*
5MDY|1|2|U|219
5MDY|1|2|G|220
5MDY|1|2|C|221

Current chains

Chain 2

16S ribosomal RNA

Nearby chains

Chain y

30S ribosomal protein S20