IL_5NDK_168

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

GGGG*CCGAC

Length

9 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_168 not in the Motif Atlas

Homologous match to IL_7RQB_109

Geometric discrepancy: 0.1467

The information below is about IL_7RQB_109

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_58764.3

Basepair signature

cWW-L-R-L-R-L-cWW

Number of instances in this motif group

11

Unit IDs

5NDK|1|14|G|2856
5NDK|1|14|G|2857
5NDK|1|14|G|2858
5NDK|1|14|G|2859
*
5NDK|1|14|C|2883
5NDK|1|14|C|2884
5NDK|1|14|G|2885
5NDK|1|14|A|2886
5NDK|1|14|C|2887

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L3

Chain 55

50S ribosomal protein L17

Chain 75

50S ribosomal protein L19