J5_9D89_004

3D structure

PDB id

9D89 (explore in PDB, NAKB, or RNA 3D Hub)

Description

E. coli 50S ribosomal subunit in complex with PrAMP rumicidin-2 (focused refinement)

Experimental method

ELECTRON MICROSCOPY

Resolution

1.95 Å

Loop

Sequence

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

9D89|1|D|U|1760, 9D89|1|D|G|1765

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_9D89_004 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0389

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

9D89|1|D|G|1676
9D89|1|D|C|1677
9D89|1|D|A|1678
9D89|1|D|A|1679
9D89|1|D|A|1680
9D89|1|D|A|1681
9D89|1|D|U|1682
9D89|1|D|G|1683
9D89|1|D|G|1684
*
9D89|1|D|C|1708
9D89|1|D|G|1709
*
9D89|1|D|U|1753
9D89|1|D|C|1754
*
9D89|1|D|G|1758
9D89|1|D|A|1759
9D89|1|D|U|1760
9D89|1|D|A|1761
9D89|1|D|C|1762
9D89|1|D|C|1763
9D89|1|D|A|1764
9D89|1|D|G|1765
9D89|1|D|C|1766
*
9D89|1|D|G|1992
9D89|1|D|G|1993
9D89|1|D|C|1994

Current chains

Chain D

23S rRNA

Nearby chains

Chain G

50S ribosomal protein L3

Chain j

50S ribosomal protein L14

Chain o

50S ribosomal protein L19