HL_5NDK_085

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

CUGGGGCGG

Length

9 nucleotides

Bulged bases

5NDK|1|14|G|2265

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_085 not in the Motif Atlas

Homologous match to HL_7RQB_053

Geometric discrepancy: 0.0989

The information below is about HL_7RQB_053

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5NDK|1|14|C|2263
5NDK|1|14|U|2264
5NDK|1|14|G|2265
5NDK|1|14|G|2266
5NDK|1|14|G|2267
5NDK|1|14|G|2268
5NDK|1|14|C|2269
5NDK|1|14|G|2270
5NDK|1|14|G|2271

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 45

50S ribosomal protein L16

Chain E5

50S ribosomal protein L27

Chain X4

Transfer RNA; tRNA