HL_5NDJ_014

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

GCUCAAC

Length

7 nucleotides

Bulged bases

5NDJ|1|13|U|1248

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_014 not in the Motif Atlas

Homologous match to HL_4LFB_014

Geometric discrepancy: 0.1041

The information below is about HL_4LFB_014

Detailed Annotation

GNRA-like with tWH

Broad Annotation

GNRA

Motif group

HL_10453.3

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

9

Unit IDs

5NDJ|1|13|G|1246
5NDJ|1|13|C|1247
5NDJ|1|13|U|1248
5NDJ|1|13|C|1249
5NDJ|1|13|A|1250
5NDJ|1|13|A|1251
5NDJ|1|13|C|1252

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 3E

30S ribosomal protein S4

Chain 7I

30S ribosomal protein S16