HL_5NDK_127

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

GUUAAGUC

Length

8 nucleotides

Bulged bases

5NDK|1|1G|G|1722

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_127 not in the Motif Atlas

Homologous match to HL_4LFB_025

Geometric discrepancy: 0.1347

The information below is about HL_4LFB_025

Detailed Annotation

T-loop related

Broad Annotation

T-loop

Motif group

HL_63894.1

Basepair signature

cWW-cWW-F-F-F

Number of instances in this motif group

18

Unit IDs

5NDK|1|1G|G|1717
5NDK|1|1G|U|1718
5NDK|1|1G|U|1719
5NDK|1|1G|A|1720
5NDK|1|1G|A|1721
5NDK|1|1G|G|1722
5NDK|1|1G|U|1723
5NDK|1|1G|C|1724

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 12

30S ribosomal protein S2

Chain 62

30S ribosomal protein S7