J3_5OBM_080

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

AUAUAGAUG*CAUAGCAGG*CGAAUUGCAAUGUCAUUU

Length

36 nucleotides

Bulged bases

5OBM|1|5|A|3172, 5OBM|1|5|G|3173, 5OBM|1|5|A|3215, 5OBM|1|5|G|3216, 5OBM|1|5|G|3219, 5OBM|1|5|A|3268, 5OBM|1|5|U|3270, 5OBM|1|5|C|3272, 5OBM|1|5|U|3275, 5OBM|1|5|G|3276

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|5|A|3168
5OBM|1|5|U|3169
5OBM|1|5|A|3170
5OBM|1|5|U|3171
5OBM|1|5|A|3172
5OBM|1|5|G|3173
5OBM|1|5|A|3174
5OBM|1|5|U|3175
5OBM|1|5|G|3176
*
5OBM|1|5|C|3212
5OBM|1|5|A|3213
5OBM|1|5|U|3214
5OBM|1|5|A|3215
5OBM|1|5|G|3216
5OBM|1|5|C|3217
5OBM|1|5|A|3218
5OBM|1|5|G|3219
5OBM|1|5|G|3220
*
5OBM|1|5|C|3265
5OBM|1|5|G|3266
5OBM|1|5|A|3267
5OBM|1|5|A|3268
5OBM|1|5|U|3269
5OBM|1|5|U|3270
5OBM|1|5|G|3271
5OBM|1|5|C|3272
5OBM|1|5|A|3273
5OBM|1|5|A|3274
5OBM|1|5|U|3275
5OBM|1|5|G|3276
5OBM|1|5|U|3277
5OBM|1|5|C|3278
5OBM|1|5|A|3279
5OBM|1|5|U|3280
5OBM|1|5|U|3281
5OBM|1|5|U|3282

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l6

60S ribosomal protein L6-A

Chain m4

60S ribosomal protein L14-A

Chain m6

60S ribosomal protein L16-A

Chain o3

60S ribosomal protein L33-A