J5_5ND9_001

3D structure

PDB id

5ND9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hibernating ribosome from Staphylococcus aureus (Rotated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CA*UAU*AAG

Length

22 nucleotides

Bulged bases

5ND9|1|A|U|50

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

J5_5ND9_001 not in the Motif Atlas

Homologous match to J5_4WF9_001

Geometric discrepancy: 0.1539

The information below is about J5_4WF9_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_27223.1

Basepair signature

cWW-cWW-cWW-cWW-F-cWW-F-tSH-F-tHH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5ND9|1|A|C|47
5ND9|1|A|G|48
5ND9|1|A|A|49
5ND9|1|A|U|50
5ND9|1|A|G|51
5ND9|1|A|A|52
5ND9|1|A|A|53
5ND9|1|A|G|54
*
5ND9|1|A|C|115
5ND9|1|A|G|116
5ND9|1|A|A|117
5ND9|1|A|A|118
5ND9|1|A|U|119
5ND9|1|A|G|120
*
5ND9|1|A|C|129
5ND9|1|A|A|130
*
5ND9|1|A|U|149
5ND9|1|A|A|150
5ND9|1|A|U|151
*
5ND9|1|A|A|178
5ND9|1|A|A|179
5ND9|1|A|G|180

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain 6

50S ribosomal protein L34

Chain W

50S ribosomal protein L23