IL_5HKV_007

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

GAGAACUG*CUUAGUACC

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

IL_5HKV_007 not in the Motif Atlas

Geometric match to IL_4WF9_008

Geometric discrepancy: 0.0622

The information below is about IL_4WF9_008

Detailed Annotation

9x8 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_93502.1

Basepair signature

cWW-L-R-tSH-tHW-tHH-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

5HKV|1|X|G|190
5HKV|1|X|A|191
5HKV|1|X|G|192
5HKV|1|X|A|193
5HKV|1|X|A|194
5HKV|1|X|C|195
5HKV|1|X|U|196
5HKV|1|X|G|197
*
5HKV|1|X|C|204
5HKV|1|X|U|205
5HKV|1|X|U|206
5HKV|1|X|A|207
5HKV|1|X|G|208
5HKV|1|X|U|209
5HKV|1|X|A|210
5HKV|1|X|C|211
5HKV|1|X|C|212

Current chains

Chain X

23s ribosomal RNA

Nearby chains

Chain 2

50S ribosomal protein L34

Chain I

50S ribosomal protein L15

Chain U

50S ribosomal protein L28