IL_5NDJ_121

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)

Experimental method

X-RAY DIFFRACTION

Resolution

3.15 Å

Loop

Sequence

GAGAAC*GAC

Length

9 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_5NDJ_121 not in the Motif Atlas

Homologous match to IL_5J7L_304

Geometric discrepancy: 0.063

The information below is about IL_5J7L_304

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_12566.4

Basepair signature

cWW-L-tHS-L-cWW-L

Number of instances in this motif group

5

Unit IDs

5NDJ|1|14|G|1701
5NDJ|1|14|A|1702
5NDJ|1|14|G|1703
5NDJ|1|14|A|1704
5NDJ|1|14|A|1705
5NDJ|1|14|C|1706
*
5NDJ|1|14|G|2029
5NDJ|1|14|A|2030
5NDJ|1|14|C|2031

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L3

Chain 55

50S ribosomal protein L17