HL_5NDK_092

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

CGUCCACAG

Length

9 nucleotides

Bulged bases

5NDK|1|14|C|2492

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_092 not in the Motif Atlas

Geometric match to HL_361D_002

Geometric discrepancy: 0.3335

The information below is about HL_361D_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_13963.3

Basepair signature

cWW-F-F

Number of instances in this motif group

4

Unit IDs

5NDK|1|14|C|2486
5NDK|1|14|G|2487
5NDK|1|14|U|2488
5NDK|1|14|C|2489
5NDK|1|14|C|2490
5NDK|1|14|A|2491
5NDK|1|14|C|2492
5NDK|1|14|A|2493
5NDK|1|14|G|2494

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain W4

Transfer RNA; tRNA