IL_9D7S_338

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

G(4OC)C(5MC)*G(UR3)AAC

Length

9 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 4OC, 5MC, UR3

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_338 not in the Motif Atlas

Homologous match to IL_4LFB_068

Geometric discrepancy: 0.0892

The information below is about IL_4LFB_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_25873.2

Basepair signature

cWW-cSH-cWS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

9D7S|1|2a|G|1401
9D7S|1|2a|4OC|1402
9D7S|1|2a|C|1403
9D7S|1|2a|5MC|1404
*
9D7S|1|2a|G|1497
9D7S|1|2a|UR3|1498
9D7S|1|2a|A|1499
9D7S|1|2a|A|1500
9D7S|1|2a|C|1501

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2v

PHE-Stop mRNA

Chain 2w

Peptide chain release factor 1

Chain 2x

Transfer RNA; tRNA