J4_5ND8_005

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

GUUUC*GGUUAG*CC*GCCCGUAC

Length

21 nucleotides

Bulged bases

5ND8|1|A|U|1378

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

J4_5ND8_005 not in the Motif Atlas

Homologous match to J4_4WF9_005

Geometric discrepancy: 0.1092

The information below is about J4_4WF9_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77353.1

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

8

Unit IDs

5ND8|1|A|G|1347
5ND8|1|A|U|1348
5ND8|1|A|U|1349
5ND8|1|A|U|1350
5ND8|1|A|C|1351
*
5ND8|1|A|G|1375
5ND8|1|A|G|1376
5ND8|1|A|U|1377
5ND8|1|A|U|1378
5ND8|1|A|A|1379
5ND8|1|A|G|1380
*
5ND8|1|A|C|1441
5ND8|1|A|C|1442
*
5ND8|1|A|G|1641
5ND8|1|A|C|1642
5ND8|1|A|C|1643
5ND8|1|A|C|1644
5ND8|1|A|G|1645
5ND8|1|A|U|1646
5ND8|1|A|A|1647
5ND8|1|A|C|1648

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain 6

50S ribosomal protein L34

Chain W

50S ribosomal protein L23