J3_9D7R_038

3D structure

PDB id

9D7R (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Fva1 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

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

9D7R|1|2A|U|504, 9D7R|1|2A|G|508

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_9D7R_038 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0695

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.1

Basepair signature

cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F

Number of instances in this motif group

9

Unit IDs

9D7R|1|2A|G|30
9D7R|1|2A|C|31
*
9D7R|1|2A|G|474
9D7R|1|2A|U|475
9D7R|1|2A|G|476
9D7R|1|2A|A|477
9D7R|1|2A|A|478
9D7R|1|2A|A|479
9D7R|1|2A|A|480
9D7R|1|2A|G|481
9D7R|1|2A|A|482
9D7R|1|2A|A|483
9D7R|1|2A|C|484
*
9D7R|1|2A|G|496
9D7R|1|2A|A|497
9D7R|1|2A|G|498
9D7R|1|2A|U|499
9D7R|1|2A|G|500
9D7R|1|2A|A|501
9D7R|1|2A|A|502
9D7R|1|2A|A|503
9D7R|1|2A|U|504
9D7R|1|2A|A|505
9D7R|1|2A|G|506
9D7R|1|2A|A|507
9D7R|1|2A|G|508
9D7R|1|2A|C|509
9D7R|1|2A|C|510

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22

Chain 2Y

50S ribosomal protein L24