J6_5OBM_001

3D structure

PDB id

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

Description

Crystal structure of Gentamicin bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.4 Å

Loop

Sequence

GAGUAC*GGAAAAGAAAC*GGAUU*AAAAG*CUAAAUAUUGG*CAUC

Length

42 nucleotides

Bulged bases

5OBM|1|1|A|67, 5OBM|1|1|U|329, 5OBM|1|4|U|34

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5OBM|1|1|G|22
5OBM|1|1|A|23
5OBM|1|1|G|24
5OBM|1|1|U|25
5OBM|1|1|A|26
5OBM|1|1|C|27
*
5OBM|1|1|G|58
5OBM|1|1|G|59
5OBM|1|1|A|60
5OBM|1|1|A|61
5OBM|1|1|A|62
5OBM|1|1|A|63
5OBM|1|1|G|64
5OBM|1|1|A|65
5OBM|1|1|A|66
5OBM|1|1|A|67
5OBM|1|1|C|68
*
5OBM|1|1|G|75
5OBM|1|1|G|76
5OBM|1|1|A|77
5OBM|1|1|U|78
5OBM|1|1|U|79
*
5OBM|1|1|A|106
5OBM|1|1|A|107
5OBM|1|1|A|108
5OBM|1|1|A|109
5OBM|1|1|G|110
*
5OBM|1|1|C|321
5OBM|1|1|U|322
5OBM|1|1|A|323
5OBM|1|1|A|324
5OBM|1|1|A|325
5OBM|1|1|U|326
5OBM|1|1|A|327
5OBM|1|1|U|328
5OBM|1|1|U|329
5OBM|1|1|G|330
5OBM|1|1|G|331
*
5OBM|1|4|C|32
5OBM|1|4|A|33
5OBM|1|4|U|34
5OBM|1|4|C|35

Current chains

Chain 1

25S ribosomal RNA

Chain 4

5.8S ribosomal RNA

Nearby chains

Chain L4

60S ribosomal protein L4-A

Chain M3

60S ribosomal protein L13-A

Chain M5

60S ribosomal protein L15-A

Chain O5

60S ribosomal protein L35-A

Chain O6

60S ribosomal protein L36-A

Chain O7

60S ribosomal protein L37-A