IL_5NDJ_057

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

CAC*GAAG

Length

7 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_057 not in the Motif Atlas

Geometric match to IL_3C3Z_002

Geometric discrepancy: 0.1415

The information below is about IL_3C3Z_002

Detailed Annotation

Decoding loop related

Broad Annotation

Decoding loop related

Motif group

IL_31737.3

Basepair signature

cWW-L-cWW

Number of instances in this motif group

12

Unit IDs

5NDJ|1|13|C|2035
5NDJ|1|13|A|2036
5NDJ|1|13|C|2037
*
5NDJ|1|13|G|2114
5NDJ|1|13|A|2115
5NDJ|1|13|A|2116
5NDJ|1|13|G|2117

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 1H

Large subunit ribosomal RNA; LSU rRNA

Chain 3I

30S ribosomal protein S12

Chain W1

Transfer RNA; tRNA

Chain Y1

mRNA