J3_8IFD_019

3D structure

PDB id

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

Description

Dibekacin-added human 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.59 Å

Loop

Sequence

CCGGAC*GGGUG*UUAGAUG

Length

18 nucleotides

Bulged bases

8IFD|1|2m|C|1273, 8IFD|1|2m|G|1274, 8IFD|1|2m|G|1507, 8IFD|1|2m|U|1509

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_8IFD_019 not in the Motif Atlas

Homologous match to J3_8C3A_041

Geometric discrepancy: 0.4132

The information below is about J3_8C3A_041

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_23728.1

Basepair signature

cWW-tWH-F-F-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

2

Unit IDs

8IFD|1|2m|C|1272
8IFD|1|2m|C|1273
8IFD|1|2m|G|1274
8IFD|1|2m|G|1275
8IFD|1|2m|A|1276
8IFD|1|2m|C|1277
*
8IFD|1|2m|G|1320
8IFD|1|2m|G|1321
8IFD|1|2m|G|1322
8IFD|1|2m|U|1323
8IFD|1|2m|G|1324
*
8IFD|1|2m|U|1504
8IFD|1|2m|U|1505
8IFD|1|2m|A|1506
8IFD|1|2m|G|1507
8IFD|1|2m|A|1508
8IFD|1|2m|U|1509
8IFD|1|2m|G|1510

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2u

40S ribosomal protein S10

Chain 3E

40S ribosomal protein S29

Chain 3R

Ubiquitin-40S ribosomal protein S27a