HL_5NDK_055

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

UGAAAAG

Length

7 nucleotides

Bulged bases

5NDK|1|14|A|830, 5NDK|1|14|A|833

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_055 not in the Motif Atlas

Homologous match to HL_7A0S_023

Geometric discrepancy: 0.1222

The information below is about HL_7A0S_023

Detailed Annotation

UNCG variation

Broad Annotation

UNCG variation

Motif group

HL_51020.1

Basepair signature

cWW-cSW-F

Number of instances in this motif group

11

Unit IDs

5NDK|1|14|U|828
5NDK|1|14|G|829
5NDK|1|14|A|830
5NDK|1|14|A|831
5NDK|1|14|A|832
5NDK|1|14|A|833
5NDK|1|14|G|834

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2