J5_5ND8_001

3D structure

PDB id

5ND8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hibernating ribosome from Staphylococcus aureus (Unrotated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CA*UAU*AAG

Length

22 nucleotides

Bulged bases

5ND8|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_5ND8_001 not in the Motif Atlas

Homologous match to J5_4WF9_001

Geometric discrepancy: 0.1331

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

5ND8|1|A|C|47
5ND8|1|A|G|48
5ND8|1|A|A|49
5ND8|1|A|U|50
5ND8|1|A|G|51
5ND8|1|A|A|52
5ND8|1|A|A|53
5ND8|1|A|G|54
*
5ND8|1|A|C|115
5ND8|1|A|G|116
5ND8|1|A|A|117
5ND8|1|A|A|118
5ND8|1|A|U|119
5ND8|1|A|G|120
*
5ND8|1|A|C|129
5ND8|1|A|A|130
*
5ND8|1|A|U|149
5ND8|1|A|A|150
5ND8|1|A|U|151
*
5ND8|1|A|A|178
5ND8|1|A|A|179
5ND8|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