J4_5DM6_010

3D structure

PDB id

5DM6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GAGU*AAC*GGAACG*CAGC

Length

17 nucleotides

Bulged bases

None detected

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_5DM6_010 not in the Motif Atlas

Homologous match to J4_7A0S_010

Geometric discrepancy: 0.0936

The information below is about J4_7A0S_010

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_54165.1

Basepair signature

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

Number of instances in this motif group

1

Unit IDs

5DM6|1|X|G|2643
5DM6|1|X|A|2644
5DM6|1|X|G|2645
5DM6|1|X|U|2646
*
5DM6|1|X|A|2674
5DM6|1|X|A|2675
5DM6|1|X|C|2676
*
5DM6|1|X|G|2731
5DM6|1|X|G|2732
5DM6|1|X|A|2733
5DM6|1|X|A|2734
5DM6|1|X|C|2735
5DM6|1|X|G|2736
*
5DM6|1|X|C|2768
5DM6|1|X|A|2769
5DM6|1|X|G|2770
5DM6|1|X|C|2771

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain G

50S ribosomal protein L13

Chain H

50S ribosomal protein L14