HL_5NDJ_086

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

CUAAAAGGUAACG

Length

13 nucleotides

Bulged bases

5NDJ|1|14|A|2283, 5NDJ|1|14|C|2290

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_086 not in the Motif Atlas

Homologous match to HL_7RQB_054

Geometric discrepancy: 0.0713

The information below is about HL_7RQB_054

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_19870.6

Basepair signature

cWW-tSH-tHH-tWW-F-F-F

Number of instances in this motif group

7

Unit IDs

5NDJ|1|14|C|2279
5NDJ|1|14|U|2280
5NDJ|1|14|A|2281
5NDJ|1|14|A|2282
5NDJ|1|14|A|2283
5NDJ|1|14|A|2284
5NDJ|1|14|G|2285
5NDJ|1|14|G|2286
5NDJ|1|14|U|2287
5NDJ|1|14|A|2288
5NDJ|1|14|A|2289
5NDJ|1|14|C|2290
5NDJ|1|14|G|2291

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 45

50S ribosomal protein L16

Chain E5

50S ribosomal protein L27