IL_5NDJ_083

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

UGAAG*UGGAG

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_5NDJ_083 not in the Motif Atlas

Geometric match to IL_7RQB_021

Geometric discrepancy: 0.0533

The information below is about IL_7RQB_021

Detailed Annotation

Triple sheared

Broad Annotation

No text annotation

Motif group

IL_56467.8

Basepair signature

cWW-tSH-tSH-tHS-cWW

Number of instances in this motif group

29

Unit IDs

5NDJ|1|14|U|752
5NDJ|1|14|G|753
5NDJ|1|14|A|754
5NDJ|1|14|A|755
5NDJ|1|14|G|756
*
5NDJ|1|14|U|773
5NDJ|1|14|G|774
5NDJ|1|14|G|775
5NDJ|1|14|A|776
5NDJ|1|14|G|777

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2