HL_5NDJ_157

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

GGUGAGAC

Length

8 nucleotides

Bulged bases

None detected

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_157 not in the Motif Atlas

Homologous match to HL_7RQB_022

Geometric discrepancy: 0.0807

The information below is about HL_7RQB_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_84085.2

Basepair signature

cWW-tSH-F-F-F-F

Number of instances in this motif group

15

Unit IDs

5NDJ|1|1H|G|761
5NDJ|1|1H|G|762
5NDJ|1|1H|U|763
5NDJ|1|1H|G|764
5NDJ|1|1H|A|765
5NDJ|1|1H|G|766
5NDJ|1|1H|A|767
5NDJ|1|1H|C|768

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 13

Small subunit ribosomal RNA; SSU rRNA

Chain 6I

30S ribosomal protein S15

Chain 8I

30S ribosomal protein S17