HL_5NDJ_124

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

UGAAAG

Length

6 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_124 not in the Motif Atlas

Homologous match to HL_4LFB_022

Geometric discrepancy: 0.1318

The information below is about HL_4LFB_022

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_37824.8

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

352

Unit IDs

5NDJ|1|1G|U|1636
5NDJ|1|1G|G|1637
5NDJ|1|1G|A|1638
5NDJ|1|1G|A|1639
5NDJ|1|1G|A|1640
5NDJ|1|1G|G|1641

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 5A

30S ribosomal protein S14 type Z

Chain AA

30S ribosomal protein S19