J3_8IFD_016

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

CCAG*CCAGUAA*UGAUUAAG

Length

19 nucleotides

Bulged bases

None detected

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_016 not in the Motif Atlas

Homologous match to J3_4V88_035

Geometric discrepancy: 0.143

The information below is about J3_4V88_035

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.1

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

8IFD|1|2m|C|1218
8IFD|1|2m|C|1219
8IFD|1|2m|A|1220
8IFD|1|2m|G|1221
*
8IFD|1|2m|C|1645
8IFD|1|2m|C|1646
8IFD|1|2m|A|1647
8IFD|1|2m|G|1648
8IFD|1|2m|U|1649
8IFD|1|2m|A|1650
8IFD|1|2m|A|1651
*
8IFD|1|2m|U|1673
8IFD|1|2m|G|1674
8IFD|1|2m|A|1675
8IFD|1|2m|U|1676
8IFD|1|2m|U|1677
8IFD|1|2m|A|1678
8IFD|1|2m|A|1679
8IFD|1|2m|G|1680

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2r

40S ribosomal protein S5

Chain 2x

40S ribosomal protein S16

Chain 3D

40S ribosomal protein S28