IL_5NDJ_317

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

GG*CAC

Length

5 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

IL_5NDJ_317 not in the Motif Atlas

Geometric match to IL_7RQB_092

Geometric discrepancy: 0.0603

The information below is about IL_7RQB_092

Detailed Annotation

Major groove platform

Broad Annotation

No text annotation

Motif group

IL_27635.3

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

38

Unit IDs

5NDJ|1|1H|G|2469
5NDJ|1|1H|G|2470
*
5NDJ|1|1H|C|2511
5NDJ|1|1H|A|2512
5NDJ|1|1H|C|2513

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L3

Chain 88

50S ribosomal protein L16

Chain I8

50S ribosomal protein L27