HL_5NDK_098

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

CUGAAAGCAUCUAAG

Length

15 nucleotides

Bulged bases

5NDK|1|14|G|2767, 5NDK|1|14|C|2771

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_098 not in the Motif Atlas

Homologous match to HL_7A0S_065

Geometric discrepancy: 0.1404

The information below is about HL_7A0S_065

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_53269.1

Basepair signature

cWW-tWH-tSH-cWH-tSH-tHW-tHW-tSW

Number of instances in this motif group

11

Unit IDs

5NDK|1|14|C|2761
5NDK|1|14|U|2762
5NDK|1|14|G|2763
5NDK|1|14|A|2764
5NDK|1|14|A|2765
5NDK|1|14|A|2766
5NDK|1|14|G|2767
5NDK|1|14|C|2768
5NDK|1|14|A|2769
5NDK|1|14|U|2770
5NDK|1|14|C|2771
5NDK|1|14|U|2772
5NDK|1|14|A|2773
5NDK|1|14|A|2774
5NDK|1|14|G|2775

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 15

50S ribosomal protein L13

Chain 59

50S ribosomal protein L6