J3_9D7S_006

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

CGAAG*CGCCAGAGAG*CGUAG

Length

20 nucleotides

Bulged bases

9D7S|1|1A|G|321

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

J3_9D7S_006 not in the Motif Atlas

Homologous match to J3_9DFE_006

Geometric discrepancy: 0.0477

The information below is about J3_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46299.2

Basepair signature

cWW-F-F-F-cHH-cWW-tHS-F-cWW-cSW-tHS-cWW

Number of instances in this motif group

3

Unit IDs

9D7S|1|1A|C|297
9D7S|1|1A|G|298
9D7S|1|1A|A|299
9D7S|1|1A|A|300
9D7S|1|1A|G|301
*
9D7S|1|1A|C|316
9D7S|1|1A|G|317
9D7S|1|1A|C|318
9D7S|1|1A|C|319
9D7S|1|1A|A|320
9D7S|1|1A|G|321
9D7S|1|1A|A|322
9D7S|1|1A|G|323
9D7S|1|1A|A|324
9D7S|1|1A|G|325
*
9D7S|1|1A|C|337
9D7S|1|1A|G|338
9D7S|1|1A|U|339
9D7S|1|1A|A|340
9D7S|1|1A|G|341

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1F

50S ribosomal protein L4

Chain 1Y

50S ribosomal protein L24