IL_5NDJ_078

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

UUAAG*CGGAG

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_078 not in the Motif Atlas

Homologous match to IL_4WF9_019

Geometric discrepancy: 0.0967

The information below is about IL_4WF9_019

Detailed Annotation

AAA cross-strand stack

Broad Annotation

AAA cross-strand stack

Motif group

IL_66798.2

Basepair signature

cWW-L-R-L-R-tHS-cWW

Number of instances in this motif group

6

Unit IDs

5NDJ|1|14|U|631
5NDJ|1|14|U|632
5NDJ|1|14|A|633
5NDJ|1|14|A|634
5NDJ|1|14|G|635
*
5NDJ|1|14|C|645
5NDJ|1|14|G|646
5NDJ|1|14|G|647
5NDJ|1|14|A|648
5NDJ|1|14|G|649

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 35

50S ribosomal protein L15

Chain 39

50S ribosomal protein L4