IL_5NDJ_153

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

CCGAG*CGGCG

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_153 not in the Motif Atlas

Homologous match to IL_4WF9_093

Geometric discrepancy: 0.1696

The information below is about IL_4WF9_093

Detailed Annotation

Triple sheared

Broad Annotation

No text annotation

Motif group

IL_17948.2

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

13

Unit IDs

5NDJ|1|14|C|2481
5NDJ|1|14|C|2482
5NDJ|1|14|G|2483
5NDJ|1|14|A|2484
5NDJ|1|14|G|2485
*
5NDJ|1|14|C|2495
5NDJ|1|14|G|2496
5NDJ|1|14|G|2497
5NDJ|1|14|C|2498
5NDJ|1|14|G|2499

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 45

50S ribosomal protein L16

Chain W4

Transfer RNA; tRNA