J3_5NDK_017

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

CAG*CGAAC*GAUG

Length

12 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

J3_5NDK_017 not in the Motif Atlas

Homologous match to J3_7RQB_005

Geometric discrepancy: 0.0547

The information below is about J3_7RQB_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_44724.4

Basepair signature

cWW-tSH-F-cWW-tHS-cWW-F

Number of instances in this motif group

6

Unit IDs

5NDK|1|14|C|747
5NDK|1|14|A|748
5NDK|1|14|G|749
*
5NDK|1|14|C|781
5NDK|1|14|G|782
5NDK|1|14|A|783
5NDK|1|14|A|784
5NDK|1|14|C|785
*
5NDK|1|14|G|809
5NDK|1|14|A|810
5NDK|1|14|U|811
5NDK|1|14|G|812

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2