IL_4V5D_338

3D structure

PDB id

4V5D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA.

Experimental method

X-RAY DIFFRACTION

Resolution

3.5 Å

Loop

Sequence

UGUAG*CGAAG

Length

10 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_4V5D_338 not in the Motif Atlas

Homologous match to IL_9DFE_026

Geometric discrepancy: 0.1086

The information below is about IL_9DFE_026

Detailed Annotation

5x5 Sarcin-Ricin with intercalated A; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_38862.4

Basepair signature

cWW-cSH-R-tWH-tHS-cWW

Number of instances in this motif group

5

Unit IDs

4V5D|1|BA|U|858
4V5D|1|BA|G|859
4V5D|1|BA|U|860
4V5D|1|BA|A|861
4V5D|1|BA|G|862
*
4V5D|1|BA|C|915
4V5D|1|BA|G|916
4V5D|1|BA|A|917
4V5D|1|BA|A|918
4V5D|1|BA|G|919

Current chains

Chain BA

23S RIBOSOMAL RNA

Nearby chains

Chain B0

50S RIBOSOMAL PROTEIN L27

Chain BB

5S ribosomal RNA; 5S rRNA

Chain BQ

50S RIBOSOMAL PROTEIN L16