J5_8RPZ_004

3D structure

PDB id

8RPZ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Escherichia coli 50S subunit in complex with the antimicrobial peptide Api88 - conformation I

Experimental method

ELECTRON MICROSCOPY

Resolution

2.44 Å

Loop

Sequence

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

8RPZ|1|A|U|1758, 8RPZ|1|A|G|1763

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

J5_8RPZ_004 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0707

The information below is about J5_5J7L_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

8RPZ|1|A|G|1674
8RPZ|1|A|C|1675
8RPZ|1|A|A|1676
8RPZ|1|A|A|1677
8RPZ|1|A|A|1678
8RPZ|1|A|A|1679
8RPZ|1|A|U|1680
8RPZ|1|A|G|1681
8RPZ|1|A|G|1682
*
8RPZ|1|A|C|1706
8RPZ|1|A|G|1707
*
8RPZ|1|A|U|1751
8RPZ|1|A|C|1752
*
8RPZ|1|A|G|1756
8RPZ|1|A|A|1757
8RPZ|1|A|U|1758
8RPZ|1|A|A|1759
8RPZ|1|A|C|1760
8RPZ|1|A|C|1761
8RPZ|1|A|A|1762
8RPZ|1|A|G|1763
8RPZ|1|A|C|1764
*
8RPZ|1|A|G|1988
8RPZ|1|A|G|1989
8RPZ|1|A|C|1990

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain D

Large ribosomal subunit protein uL3

Chain K

Large ribosomal subunit protein uL14

Chain P

Large ribosomal subunit protein bL19