HL_5NDK_109

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

UGAGAG

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_5NDK_109 not in the Motif Atlas

Homologous match to HL_4LFB_007

Geometric discrepancy: 0.0919

The information below is about HL_4LFB_007

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_34789.1

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

335

Unit IDs

5NDK|1|1G|U|937
5NDK|1|1G|G|938
5NDK|1|1G|A|939
5NDK|1|1G|G|940
5NDK|1|1G|A|941
5NDK|1|1G|G|942

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 32

30S ribosomal protein S4

Chain 3A

30S ribosomal protein S12

Chain 42

30S ribosomal protein S5

Chain 8A

30S ribosomal protein S17