J4_5MDY_001

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

CC*GAGUAG*UGAAUAUG*CAAG

Length

20 nucleotides

Bulged bases

5MDY|1|1|U|405

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_001 not in the Motif Atlas

Homologous match to J4_5J7L_018

Geometric discrepancy: 0.1069

The information below is about J4_5J7L_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

Number of instances in this motif group

7

Unit IDs

5MDY|1|1|C|268
5MDY|1|1|C|269
*
5MDY|1|1|G|370
5MDY|1|1|A|371
5MDY|1|1|G|372
5MDY|1|1|U|373
5MDY|1|1|A|374
5MDY|1|1|G|375
*
5MDY|1|1|U|399
5MDY|1|1|G|400
5MDY|1|1|A|401
5MDY|1|1|A|402
5MDY|1|1|U|403
5MDY|1|1|A|404
5MDY|1|1|U|405
5MDY|1|1|G|406
*
5MDY|1|1|C|421
5MDY|1|1|A|422
5MDY|1|1|A|423
5MDY|1|1|G|424

Current chains

Chain 1

23S ribosomal RNA

Nearby chains

Chain G

50S ribosomal protein L9

Chain X

50S ribosomal protein L28