HL_5NDJ_201

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

CUGAAAGCAUCUAAG

Length

15 nucleotides

Bulged bases

5NDJ|1|1H|G|2767, 5NDJ|1|1H|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_5NDJ_201 not in the Motif Atlas

Homologous match to HL_7RQB_066

Geometric discrepancy: 0.0707

The information below is about HL_7RQB_066

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_56677.7

Basepair signature

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

Number of instances in this motif group

8

Unit IDs

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

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 51

50S ribosomal protein L6

Chain 58

50S ribosomal protein L13