J5_5HKV_005

3D structure

PDB id

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

Description

The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with lincomycin

Experimental method

X-RAY DIFFRACTION

Resolution

3.66 Å

Loop

Sequence

GCAAAAUGA*UG*CC*GUGAAUAGG*CAC

Length

25 nucleotides

Bulged bases

5HKV|1|X|G|1785, 5HKV|1|X|G|1790

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_5HKV_005 not in the Motif Atlas

Homologous match to J5_4WF9_005

Geometric discrepancy: 0.0526

The information below is about J5_4WF9_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_99177.1

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

10

Unit IDs

5HKV|1|X|G|1718
5HKV|1|X|C|1719
5HKV|1|X|A|1720
5HKV|1|X|A|1721
5HKV|1|X|A|1722
5HKV|1|X|A|1723
5HKV|1|X|U|1724
5HKV|1|X|G|1725
5HKV|1|X|A|1726
*
5HKV|1|X|U|1750
5HKV|1|X|G|1751
*
5HKV|1|X|C|1778
5HKV|1|X|C|1779
*
5HKV|1|X|G|1783
5HKV|1|X|U|1784
5HKV|1|X|G|1785
5HKV|1|X|A|1786
5HKV|1|X|A|1787
5HKV|1|X|U|1788
5HKV|1|X|A|1789
5HKV|1|X|G|1790
5HKV|1|X|G|1791
*
5HKV|1|X|C|2015
5HKV|1|X|A|2016
5HKV|1|X|C|2017

Current chains

Chain X

23s ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain H

50S ribosomal protein L14

Chain M

50S ribosomal protein L19