J3_8P8M_023

3D structure

PDB id

8P8M (explore in PDB, NAKB, or RNA 3D Hub)

Description

Yeast 60S ribosomal subunit, RPL39 deletion

Experimental method

ELECTRON MICROSCOPY

Resolution

2.66 Å

Loop

Sequence

UAGAUG*CAUAGCAGG*CGAAUUGCAAUGUCA

Length

30 nucleotides

Bulged bases

8P8M|1|A|A|3172, 8P8M|1|A|G|3173, 8P8M|1|A|A|3215, 8P8M|1|A|G|3216, 8P8M|1|A|G|3219, 8P8M|1|A|A|3268, 8P8M|1|A|U|3270, 8P8M|1|A|C|3272, 8P8M|1|A|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_8P8M_023 not in the Motif Atlas

Homologous match to J3_8P9A_064

Geometric discrepancy: 0.1856

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

8P8M|1|A|U|3171
8P8M|1|A|A|3172
8P8M|1|A|G|3173
8P8M|1|A|A|3174
8P8M|1|A|U|3175
8P8M|1|A|G|3176
*
8P8M|1|A|C|3212
8P8M|1|A|A|3213
8P8M|1|A|U|3214
8P8M|1|A|A|3215
8P8M|1|A|G|3216
8P8M|1|A|C|3217
8P8M|1|A|A|3218
8P8M|1|A|G|3219
8P8M|1|A|G|3220
*
8P8M|1|A|C|3265
8P8M|1|A|G|3266
8P8M|1|A|A|3267
8P8M|1|A|A|3268
8P8M|1|A|U|3269
8P8M|1|A|U|3270
8P8M|1|A|G|3271
8P8M|1|A|C|3272
8P8M|1|A|A|3273
8P8M|1|A|A|3274
8P8M|1|A|U|3275
8P8M|1|A|G|3276
8P8M|1|A|U|3277
8P8M|1|A|C|3278
8P8M|1|A|A|3279

Current chains

Chain A

25S rRNA

Nearby chains

Chain JU

60S ribosomal protein L14-A

Chain JW

60S ribosomal protein L16-A

Chain LJ

60S ribosomal protein L6-A

Chain QO

60S ribosomal protein L17-A

Chain RF

60S ribosomal protein L33-A