IL_4V5D_317

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

UG*CAAG

Length

6 nucleotides

Bulged bases

4V5D|1|DA|A|2542

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_317 not in the Motif Atlas

Homologous match to IL_5J7L_342

Geometric discrepancy: 0.0847

The information below is about IL_5J7L_342

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_02555.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

9

Unit IDs

4V5D|1|DA|U|2522
4V5D|1|DA|G|2523
*
4V5D|1|DA|C|2540
4V5D|1|DA|A|2541
4V5D|1|DA|A|2542
4V5D|1|DA|G|2543

Current chains

Chain DA

23S RIBOSOMAL RNA

Nearby chains

Chain D9

50S RIBOSOMAL PROTEIN L36

Chain DN

50S RIBOSOMAL PROTEIN L13