J3_9D7R_062

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

UUUAAUUC*GAAGAACCUUAC*GGCGA

Length

25 nucleotides

Bulged bases

9D7R|1|2a|A|975, 9D7R|1|2a|G|976

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_062 not in the Motif Atlas

Homologous match to J3_4LFB_004

Geometric discrepancy: 0.0815

The information below is about J3_4LFB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_88451.1

Basepair signature

cWW-tWW-F-F-F-F-F-tSS-cWW-F-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

9D7R|1|2a|U|955
9D7R|1|2a|U|956
9D7R|1|2a|U|957
9D7R|1|2a|A|958
9D7R|1|2a|A|959
9D7R|1|2a|U|960
9D7R|1|2a|U|961
9D7R|1|2a|C|962
*
9D7R|1|2a|G|973
9D7R|1|2a|A|974
9D7R|1|2a|A|975
9D7R|1|2a|G|976
9D7R|1|2a|A|977
9D7R|1|2a|A|978
9D7R|1|2a|C|979
9D7R|1|2a|C|980
9D7R|1|2a|U|981
9D7R|1|2a|U|982
9D7R|1|2a|A|983
9D7R|1|2a|C|984
*
9D7R|1|2a|G|1221
9D7R|1|2a|G|1222
9D7R|1|2a|C|1223
9D7R|1|2a|G|1224
9D7R|1|2a|A|1225

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2j

30S ribosomal protein S10

Chain 2m

30S ribosomal protein S13

Chain 2n

30S ribosomal protein S14 type Z

Chain 2s

30S ribosomal protein S19

Chain 2w

Peptide chain release factor 1