J5_9D7T_017

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

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

9D7T|1|2A|U|2076, 9D7T|1|2A|G|2428, 9D7T|1|2A|G|2429, 9D7T|1|2A|A|2430, 9D7T|1|2A|U|2431

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

J5_9D7T_017 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0726

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.1

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

3

Unit IDs

9D7T|1|2A|U|2074
9D7T|1|2A|U|2075
9D7T|1|2A|U|2076
9D7T|1|2A|A|2077
*
9D7T|1|2A|U|2243
9D7T|1|2A|U|2244
9D7T|1|2A|U|2245
9D7T|1|2A|G|2246
*
9D7T|1|2A|C|2258
9D7T|1|2A|G|2259
*
9D7T|1|2A|C|2281
9D7T|1|2A|G|2282
*
9D7T|1|2A|C|2427
9D7T|1|2A|G|2428
9D7T|1|2A|G|2429
9D7T|1|2A|A|2430
9D7T|1|2A|U|2431
9D7T|1|2A|A|2432
9D7T|1|2A|A|2433
9D7T|1|2A|A|2434
9D7T|1|2A|A|2435

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 2D

50S ribosomal protein L2

Chain 2P

50S ribosomal protein L15

Chain 2y

Transfer RNA; tRNA