J3_5HKV_013

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

GC*GUGAAAAGCAC*GAGUGAAAUAGAACC

Length

28 nucleotides

Bulged bases

5HKV|1|X|U|549, 5HKV|1|X|A|553

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

J3_5HKV_013 not in the Motif Atlas

Homologous match to J3_4WF9_011

Geometric discrepancy: 0.0559

The information below is about J3_4WF9_011

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.1

Basepair signature

cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F

Number of instances in this motif group

9

Unit IDs

5HKV|1|X|G|30
5HKV|1|X|C|31
*
5HKV|1|X|G|520
5HKV|1|X|U|521
5HKV|1|X|G|522
5HKV|1|X|A|523
5HKV|1|X|A|524
5HKV|1|X|A|525
5HKV|1|X|A|526
5HKV|1|X|G|527
5HKV|1|X|C|528
5HKV|1|X|A|529
5HKV|1|X|C|530
*
5HKV|1|X|G|541
5HKV|1|X|A|542
5HKV|1|X|G|543
5HKV|1|X|U|544
5HKV|1|X|G|545
5HKV|1|X|A|546
5HKV|1|X|A|547
5HKV|1|X|A|548
5HKV|1|X|U|549
5HKV|1|X|A|550
5HKV|1|X|G|551
5HKV|1|X|A|552
5HKV|1|X|A|553
5HKV|1|X|C|554
5HKV|1|X|C|555

Current chains

Chain X

23s ribosomal RNA

Nearby chains

Chain N

50S ribosomal protein L20

Chain P

50S ribosomal protein L22

Chain R

50S ribosomal protein L24