J5_6YPU_002

3D structure

PDB id

6YPU (explore in PDB, NAKB, or RNA 3D Hub)

Description

Acinetobacter baumannii ribosome-amikacin complex - 30S subunit body

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

CAAG*CGGACGGG*CAC*GAC*GGCAG

Length

23 nucleotides

Bulged bases

6YPU|1|2|A|62, 6YPU|1|2|A|105, 6YPU|1|2|C|348

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_6YPU_002 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.0984

The information below is about J5_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_59910.6

Basepair signature

cWW-F-tSS-cSS-F-cWW-cWW-cWW-F-F-cWW-F-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

6YPU|1|2|C|60
6YPU|1|2|A|61
6YPU|1|2|A|62
6YPU|1|2|G|63
*
6YPU|1|2|C|102
6YPU|1|2|G|103
6YPU|1|2|G|104
6YPU|1|2|A|105
6YPU|1|2|C|106
6YPU|1|2|G|107
6YPU|1|2|G|108
6YPU|1|2|G|109
*
6YPU|1|2|C|310
6YPU|1|2|A|311
6YPU|1|2|C|312
*
6YPU|1|2|G|333
6YPU|1|2|A|334
6YPU|1|2|C|335
*
6YPU|1|2|G|346
6YPU|1|2|G|347
6YPU|1|2|C|348
6YPU|1|2|A|349
6YPU|1|2|G|350

Current chains

Chain 2

16S ribosomal RNA

Nearby chains

Chain 4

Small subunit ribosomal RNA; SSU rRNA

Chain q

30S ribosomal protein S16

Chain u

30S ribosomal protein S20