HL_5NDK_133

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

CUACGG

Length

6 nucleotides

Bulged bases

5NDK|1|1G|U|2076, 5NDK|1|1G|A|2077, 5NDK|1|1G|G|2079

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_133 not in the Motif Atlas

Geometric match to HL_5T16_002

Geometric discrepancy: 0.2288

The information below is about HL_5T16_002

Detailed Annotation

Mini UNCG

Broad Annotation

No text annotation

Motif group

HL_12626.1

Basepair signature

cWW-F

Number of instances in this motif group

12

Unit IDs

5NDK|1|1G|C|2075
5NDK|1|1G|U|2076
5NDK|1|1G|A|2077
5NDK|1|1G|C|2078
5NDK|1|1G|G|2079
5NDK|1|1G|G|2080

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain BA

30S ribosomal protein S20