J4_9D7S_023

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

CAAAG*CUGAC*GGG*CGG

Length

16 nucleotides

Bulged bases

9D7S|1|2A|A|2288, 9D7S|1|2A|G|2382

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_023 not in the Motif Atlas

Homologous match to J4_9DFE_009

Geometric discrepancy: 0.1039

The information below is about J4_9DFE_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_04930.6

Basepair signature

cWW-F-F-tWW-tHH-cWW-cWW-cHW-cWW

Number of instances in this motif group

7

Unit IDs

9D7S|1|2A|C|2285
9D7S|1|2A|A|2286
9D7S|1|2A|A|2287
9D7S|1|2A|A|2288
9D7S|1|2A|G|2289
*
9D7S|1|2A|C|2343
9D7S|1|2A|U|2344
9D7S|1|2A|G|2345
9D7S|1|2A|A|2346
9D7S|1|2A|C|2347
*
9D7S|1|2A|G|2370
9D7S|1|2A|G|2371
9D7S|1|2A|G|2372
*
9D7S|1|2A|C|2381
9D7S|1|2A|G|2382
9D7S|1|2A|G|2383

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 26

50S ribosomal protein L33

Chain 28

50S ribosomal protein L35

Chain 2S

50S ribosomal protein L18