J4_5XYM_004

3D structure

PDB id

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

Description

Large subunit of Mycobacterium smegmatis

Experimental method

ELECTRON MICROSCOPY

Resolution

3.08 Å

Loop

Sequence

GGUUC*GGUGAG*CC*GCCCGUAC

Length

21 nucleotides

Bulged bases

5XYM|1|A|G|1459

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_5XYM_004 not in the Motif Atlas

Homologous match to J4_4WF9_005

Geometric discrepancy: 0.0981

The information below is about J4_4WF9_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77353.1

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

8

Unit IDs

5XYM|1|A|G|1428
5XYM|1|A|G|1429
5XYM|1|A|U|1430
5XYM|1|A|U|1431
5XYM|1|A|C|1432
*
5XYM|1|A|G|1456
5XYM|1|A|G|1457
5XYM|1|A|U|1458
5XYM|1|A|G|1459
5XYM|1|A|A|1460
5XYM|1|A|G|1461
*
5XYM|1|A|C|1522
5XYM|1|A|C|1523
*
5XYM|1|A|G|1818
5XYM|1|A|C|1819
5XYM|1|A|C|1820
5XYM|1|A|C|1821
5XYM|1|A|G|1822
5XYM|1|A|U|1823
5XYM|1|A|A|1824
5XYM|1|A|C|1825

Current chains

Chain A

23S RNA

Nearby chains

Chain 2

50S ribosomal protein L34

Chain T

50S ribosomal protein L23