J5_5HKV_001

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

CAAUGAAG*CGAAUG*CA*UAU*AAG

Length

22 nucleotides

Bulged bases

5HKV|1|X|U|50

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_001 not in the Motif Atlas

Homologous match to J5_4WF9_001

Geometric discrepancy: 0.0836

The information below is about J5_4WF9_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_27223.1

Basepair signature

cWW-cWW-cWW-cWW-F-cWW-F-tSH-F-tHH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5HKV|1|X|C|47
5HKV|1|X|A|48
5HKV|1|X|A|49
5HKV|1|X|U|50
5HKV|1|X|G|51
5HKV|1|X|A|52
5HKV|1|X|A|53
5HKV|1|X|G|54
*
5HKV|1|X|C|115
5HKV|1|X|G|116
5HKV|1|X|A|117
5HKV|1|X|A|118
5HKV|1|X|U|119
5HKV|1|X|G|120
*
5HKV|1|X|C|129
5HKV|1|X|A|130
*
5HKV|1|X|U|149
5HKV|1|X|A|150
5HKV|1|X|U|151
*
5HKV|1|X|A|178
5HKV|1|X|A|179
5HKV|1|X|G|180

Current chains

Chain X

23s ribosomal RNA

Nearby chains

Chain 2

50S ribosomal protein L34

Chain Q

50S ribosomal protein L23