HL_5NDK_156

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

GGCCCGCACGCGGGCC

Length

16 nucleotides

Bulged bases

5NDK|1|1H|C|692

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_156 not in the Motif Atlas

Geometric match to HL_4V88_198

Geometric discrepancy: 0.264

The information below is about HL_4V88_198

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_71121.1

Basepair signature

cWW-F

Number of instances in this motif group

24

Unit IDs

5NDK|1|1H|G|684
5NDK|1|1H|G|685
5NDK|1|1H|C|686
5NDK|1|1H|C|687
5NDK|1|1H|C|688
5NDK|1|1H|G|689
5NDK|1|1H|C|690
5NDK|1|1H|A|691
5NDK|1|1H|C|692
5NDK|1|1H|G|693
5NDK|1|1H|C|694
5NDK|1|1H|G|695
5NDK|1|1H|G|696
5NDK|1|1H|G|697
5NDK|1|1H|C|698
5NDK|1|1H|C|699

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 78

50S ribosomal protein L15