IL_5NDK_317

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

CGAG*CGAG

Length

8 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_5NDK_317 not in the Motif Atlas

Homologous match to IL_7RQB_089

Geometric discrepancy: 0.0743

The information below is about IL_7RQB_089

Detailed Annotation

Double sheared

Broad Annotation

Double sheared

Motif group

IL_09705.10

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

33

Unit IDs

5NDK|1|1H|C|2365
5NDK|1|1H|G|2366
5NDK|1|1H|A|2367
5NDK|1|1H|G|2368
*
5NDK|1|1H|C|2379
5NDK|1|1H|G|2380
5NDK|1|1H|A|2381
5NDK|1|1H|G|2382

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain I8

50S ribosomal protein L27

Chain Q8

50S ribosomal protein L35