J4_9D7S_026

3D structure

PDB id

9D7S (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.85A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.85 Å

Loop

Sequence

GAG*CAUGUG*CAAAG*CGC

Length

17 nucleotides

Bulged bases

9D7S|1|2a|A|197

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_9D7S_026 not in the Motif Atlas

Homologous match to J4_4LFB_002

Geometric discrepancy: 0.0977

The information below is about J4_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_88771.1

Basepair signature

cWW-tSS-cWW-tSS-cWW-cWW-tWH-tWH-cSH-cWW

Number of instances in this motif group

1

Unit IDs

9D7S|1|2a|G|142
9D7S|1|2a|A|143
9D7S|1|2a|G|144
*
9D7S|1|2a|C|178
9D7S|1|2a|A|179
9D7S|1|2a|U|180
9D7S|1|2a|G|181
9D7S|1|2a|U|182
9D7S|1|2a|G|183
*
9D7S|1|2a|C|194
9D7S|1|2a|A|195
9D7S|1|2a|A|196
9D7S|1|2a|A|197
9D7S|1|2a|G|198
*
9D7S|1|2a|C|219
9D7S|1|2a|G|220
9D7S|1|2a|C|221

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2t

30S ribosomal protein S20