IL_5NDJ_132

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

GGGAG*CGAAC

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_132 not in the Motif Atlas

Homologous match to IL_7RQB_075

Geometric discrepancy: 0.1414

The information below is about IL_7RQB_075

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|G|1890
5NDJ|1|14|G|1891
5NDJ|1|14|G|1892
5NDJ|1|14|A|1893
5NDJ|1|14|G|1894
*
5NDJ|1|14|C|1907
5NDJ|1|14|G|1908
5NDJ|1|14|A|1909
5NDJ|1|14|A|1910
5NDJ|1|14|C|1911

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain F5

50S ribosomal protein L28

Chain V4

Transfer RNA; tRNA