J3_9D7T_051

3D structure

PDB id

9D7T (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api137 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

GCC*GCCUAGUGAACC*GAUCAAC

Length

22 nucleotides

Bulged bases

9D7T|1|2A|A|2388, 9D7T|1|2A|U|2390, 9D7T|1|2A|A|2426

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_9D7T_051 not in the Motif Atlas

Homologous match to J3_9DFE_015

Geometric discrepancy: 0.063

The information below is about J3_9DFE_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_04772.1

Basepair signature

cWW-F-tHH-cWW-tHW-tHW-F-cWW-F-F-F-F-F

Number of instances in this motif group

8

Unit IDs

9D7T|1|2A|G|2282
9D7T|1|2A|C|2283
9D7T|1|2A|C|2284
*
9D7T|1|2A|G|2384
9D7T|1|2A|C|2385
9D7T|1|2A|C|2386
9D7T|1|2A|U|2387
9D7T|1|2A|A|2388
9D7T|1|2A|G|2389
9D7T|1|2A|U|2390
9D7T|1|2A|G|2391
9D7T|1|2A|A|2392
9D7T|1|2A|A|2393
9D7T|1|2A|C|2394
9D7T|1|2A|C|2395
*
9D7T|1|2A|G|2421
9D7T|1|2A|A|2422
9D7T|1|2A|U|2423
9D7T|1|2A|C|2424
9D7T|1|2A|A|2425
9D7T|1|2A|A|2426
9D7T|1|2A|C|2427

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 21

50S ribosomal protein L28

Chain 26

50S ribosomal protein L33

Chain 28

50S ribosomal protein L35

Chain 2P

50S ribosomal protein L15

Chain 2y

Transfer RNA; tRNA