HL_5NDJ_057

3D structure

PDB id

5NDJ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)

Experimental method

X-RAY DIFFRACTION

Resolution

3.15 Å

Loop

Sequence

GGCCCACCAGCC

Length

12 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_5NDJ_057 not in the Motif Atlas

Geometric match to HL_5NFV_001

Geometric discrepancy: 0.309

The information below is about HL_5NFV_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_69752.2

Basepair signature

cWW-F

Number of instances in this motif group

7

Unit IDs

5NDJ|1|14|G|931
5NDJ|1|14|G|932
5NDJ|1|14|C|933
5NDJ|1|14|C|934
5NDJ|1|14|C|935
5NDJ|1|14|A|936
5NDJ|1|14|C|937
5NDJ|1|14|C|938
5NDJ|1|14|A|939
5NDJ|1|14|G|940
5NDJ|1|14|C|941
5NDJ|1|14|C|942

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 4A

30S ribosomal protein S13

Chain W4

Transfer RNA; tRNA