IL_5NDK_340

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

GGAACC*GAAAC

Length

11 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_340 not in the Motif Atlas

Homologous match to IL_7RQB_112

Geometric discrepancy: 0.0896

The information below is about IL_7RQB_112

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5NDK|1|1J|G|25
5NDK|1|1J|G|26
5NDK|1|1J|A|27
5NDK|1|1J|A|28
5NDK|1|1J|C|29
5NDK|1|1J|C|30
*
5NDK|1|1J|G|58
5NDK|1|1J|A|59
5NDK|1|1J|A|60
5NDK|1|1J|A|61
5NDK|1|1J|C|62

Current chains

Chain 1J

5S ribosomal RNA

Nearby chains

Chain 49

50S ribosomal protein L5

Chain 65

50S ribosomal protein L18