IL_5NDJ_147

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

CGAG*CGAG

Length

8 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_147 not in the Motif Atlas

Homologous match to IL_7RQB_089

Geometric discrepancy: 0.075

The information below is about IL_7RQB_089

Detailed Annotation

Double sheared

Broad Annotation

Double sheared

Motif group

IL_09705.10

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

33

Unit IDs

5NDJ|1|14|C|2365
5NDJ|1|14|G|2366
5NDJ|1|14|A|2367
5NDJ|1|14|G|2368
*
5NDJ|1|14|C|2379
5NDJ|1|14|G|2380
5NDJ|1|14|A|2381
5NDJ|1|14|G|2382

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain E5

50S ribosomal protein L27

Chain M5

50S ribosomal protein L35