J4_4ZER_017

3D structure

PDB id

4ZER (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Onc112 antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

4ZER|1|2A|G|1271, 4ZER|1|2A|A|1272, 4ZER|1|2A|U|1273, 4ZER|1|2A|G|1647

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_4ZER_017 not in the Motif Atlas

Homologous match to J4_9DFE_003

Geometric discrepancy: 0.064

The information below is about J4_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.6

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

4ZER|1|2A|C|1270
4ZER|1|2A|G|1271
4ZER|1|2A|A|1272
4ZER|1|2A|U|1273
4ZER|1|2A|A|1274
4ZER|1|2A|A|1275
4ZER|1|2A|A|1276
*
4ZER|1|2A|U|1294
4ZER|1|2A|C|1295
*
4ZER|1|2A|G|1645
4ZER|1|2A|C|1646
4ZER|1|2A|G|1647
4ZER|1|2A|C|1648
*
4ZER|1|2A|G|2009
4ZER|1|2A|G|2010

Current chains

Chain 2A

23s ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2R

50S ribosomal protein L17

Chain 2W

50S ribosomal protein L22