J3_6XIR_037

3D structure

PDB id

6XIR (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

UAGAUG*CAUAGCAGG*CGAAUUGCAAUGUCA

Length

30 nucleotides

Bulged bases

6XIR|1|1|A|3172, 6XIR|1|1|G|3173, 6XIR|1|1|A|3215, 6XIR|1|1|G|3216, 6XIR|1|1|A|3218, 6XIR|1|1|G|3219, 6XIR|1|1|A|3268, 6XIR|1|1|U|3270, 6XIR|1|1|C|3272, 6XIR|1|1|U|3275

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_6XIR_037 not in the Motif Atlas

Homologous match to J3_8P9A_064

Geometric discrepancy: 0.3358

The information below is about J3_8P9A_064

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_03190.1

Basepair signature

cWW-F-F-F-F-F-F-F-cWW-F-F-F-cWW-F

Number of instances in this motif group

1

Unit IDs

6XIR|1|1|U|3171
6XIR|1|1|A|3172
6XIR|1|1|G|3173
6XIR|1|1|A|3174
6XIR|1|1|U|3175
6XIR|1|1|G|3176
*
6XIR|1|1|C|3212
6XIR|1|1|A|3213
6XIR|1|1|U|3214
6XIR|1|1|A|3215
6XIR|1|1|G|3216
6XIR|1|1|C|3217
6XIR|1|1|A|3218
6XIR|1|1|G|3219
6XIR|1|1|G|3220
*
6XIR|1|1|C|3265
6XIR|1|1|G|3266
6XIR|1|1|A|3267
6XIR|1|1|A|3268
6XIR|1|1|U|3269
6XIR|1|1|U|3270
6XIR|1|1|G|3271
6XIR|1|1|C|3272
6XIR|1|1|A|3273
6XIR|1|1|A|3274
6XIR|1|1|U|3275
6XIR|1|1|G|3276
6XIR|1|1|U|3277
6XIR|1|1|C|3278
6XIR|1|1|A|3279

Current chains

Chain 1

35S ribosomal RNA

Nearby chains

Chain E

60S ribosomal protein L6-A

Chain M

60S ribosomal protein L14-A

Chain O

60S ribosomal protein L16-A

Chain P

60S ribosomal protein L17-A

Chain f

60S ribosomal protein L33-A