HL_5NDK_077

3D structure

PDB id

5NDK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

UUUACCAAAAA

Length

11 nucleotides

Bulged bases

5NDK|1|14|A|1814, 5NDK|1|14|C|1815, 5NDK|1|14|C|1816, 5NDK|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_5NDK_077 not in the Motif Atlas

Homologous match to HL_7RQB_045

Geometric discrepancy: 0.0567

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

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