IL_9D7S_319

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

GGAGUACG*UGAAAC

Length

14 nucleotides

Bulged bases

None detected

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

IL_9D7S_319 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.0734

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_84044.1

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

5

Unit IDs

9D7S|1|2a|G|887
9D7S|1|2a|G|888
9D7S|1|2a|A|889
9D7S|1|2a|G|890
9D7S|1|2a|U|891
9D7S|1|2a|A|892
9D7S|1|2a|C|893
9D7S|1|2a|G|894
*
9D7S|1|2a|U|905
9D7S|1|2a|G|906
9D7S|1|2a|A|907
9D7S|1|2a|A|908
9D7S|1|2a|A|909
9D7S|1|2a|C|910

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2q

30S ribosomal protein S17