HL_5NDJ_077

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

UUUACCAAAAA

Length

11 nucleotides

Bulged bases

5NDJ|1|14|A|1814, 5NDJ|1|14|C|1815, 5NDJ|1|14|C|1816, 5NDJ|1|14|A|1820

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

HL_5NDJ_077 not in the Motif Atlas

Homologous match to HL_7RQB_045

Geometric discrepancy: 0.0626

The information below is about HL_7RQB_045

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_43613.5

Basepair signature

cWW-tWH-tWH-F

Number of instances in this motif group

6

Unit IDs

5NDJ|1|14|U|1811
5NDJ|1|14|U|1812
5NDJ|1|14|U|1813
5NDJ|1|14|A|1814
5NDJ|1|14|C|1815
5NDJ|1|14|C|1816
5NDJ|1|14|A|1817
5NDJ|1|14|A|1818
5NDJ|1|14|A|1819
5NDJ|1|14|A|1820
5NDJ|1|14|A|1821

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2

Chain L5

50S ribosomal protein L34