J4_5DM6_003

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

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

5DM6|1|X|G|1271, 5DM6|1|X|A|1272, 5DM6|1|X|U|1273, 5DM6|1|X|A|1274, 5DM6|1|X|C|1646, 5DM6|1|X|G|1647

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_003 not in the Motif Atlas

Homologous match to J4_7A0S_004

Geometric discrepancy: 0.0784

The information below is about J4_7A0S_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.5

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

5DM6|1|X|C|1270
5DM6|1|X|G|1271
5DM6|1|X|A|1272
5DM6|1|X|U|1273
5DM6|1|X|A|1274
5DM6|1|X|A|1275
5DM6|1|X|A|1276
*
5DM6|1|X|U|1294
5DM6|1|X|C|1295
*
5DM6|1|X|G|1645
5DM6|1|X|C|1646
5DM6|1|X|G|1647
5DM6|1|X|C|1648
*
5DM6|1|X|G|2009
5DM6|1|X|G|2010

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain K

50S ribosomal protein L17

Chain P

50S ribosomal protein L22

Chain Z

50S ribosomal protein L32