J3_9D7S_071

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

CAAUG*CCCAGUUC*GCCG

Length

17 nucleotides

Bulged bases

9D7S|1|2a|U|1240, 9D7S|1|2a|U|1302

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_071 not in the Motif Atlas

Homologous match to J3_4LFB_009

Geometric discrepancy: 0.1142

The information below is about J3_4LFB_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_37047.6

Basepair signature

cWW-cSS-tHW-F-F-F-cWW-cWW-F-cSH-F-F

Number of instances in this motif group

4

Unit IDs

9D7S|1|2a|C|1237
9D7S|1|2a|A|1238
9D7S|1|2a|A|1239
9D7S|1|2a|U|1240
9D7S|1|2a|G|1241
*
9D7S|1|2a|C|1296
9D7S|1|2a|C|1297
9D7S|1|2a|C|1298
9D7S|1|2a|A|1299
9D7S|1|2a|G|1300
9D7S|1|2a|U|1301
9D7S|1|2a|U|1302
9D7S|1|2a|C|1303
*
9D7S|1|2a|G|1334
9D7S|1|2a|C|1335
9D7S|1|2a|C|1336
9D7S|1|2a|G|1337

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2g

30S ribosomal protein S7

Chain 2m

30S ribosomal protein S13

Chain 2u

30S ribosomal protein Thx