HL_5NDK_106

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

CCUUGG

Length

6 nucleotides

Bulged bases

5NDK|1|1G|U|835, 5NDK|1|1G|G|836

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_106 not in the Motif Atlas

Homologous match to HL_4LFB_004

Geometric discrepancy: 0.1419

The information below is about HL_4LFB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_89167.1

Basepair signature

cWW-F-F

Number of instances in this motif group

20

Unit IDs

5NDK|1|1G|C|832
5NDK|1|1G|C|833
5NDK|1|1G|U|834
5NDK|1|1G|U|835
5NDK|1|1G|G|836
5NDK|1|1G|G|837

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 8A

30S ribosomal protein S17