IL_5NDG_453

3D structure

PDB id

5NDG (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of geneticin (G418) bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

UUCCC*GAUCA

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_5NDG_453 not in the Motif Atlas

Homologous match to IL_5TBW_376

Geometric discrepancy: 0.0869

The information below is about IL_5TBW_376

Detailed Annotation

Symmetric double minor groove platform

Broad Annotation

No text annotation

Motif group

IL_58103.9

Basepair signature

cWW-cSH-cWS-tSW-L-R-cWW-R

Number of instances in this motif group

9

Unit IDs

5NDG|1|7|U|32
5NDG|1|7|U|33
5NDG|1|7|C|34
5NDG|1|7|C|35
5NDG|1|7|C|36
*
5NDG|1|7|G|41
5NDG|1|7|A|42
5NDG|1|7|U|43
5NDG|1|7|C|44
5NDG|1|7|A|45

Current chains

Chain 7

5S ribosomal RNA

Nearby chains

Chain 5

Large subunit ribosomal RNA; LSU rRNA

Chain l5

60S ribosomal protein L5

Chain m1

60S ribosomal protein L11-A