IL_5NDJ_191

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

GGACG*CGGUAC

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_5NDJ_191 not in the Motif Atlas

Geometric match to IL_4LFB_018

Geometric discrepancy: 0.1383

The information below is about IL_4LFB_018

Detailed Annotation

6x5 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_88269.4

Basepair signature

cWW-tWW-cSH-tWH-tHS-cWW

Number of instances in this motif group

3

Unit IDs

5NDJ|1|1G|G|1086
5NDJ|1|1G|G|1087
5NDJ|1|1G|A|1088
5NDJ|1|1G|C|1089
5NDJ|1|1G|G|1090
*
5NDJ|1|1G|C|1113
5NDJ|1|1G|G|1114
5NDJ|1|1G|G|1115
5NDJ|1|1G|U|1116
5NDJ|1|1G|A|1117
5NDJ|1|1G|C|1118

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 32

30S ribosomal protein S4

Chain 7A

30S ribosomal protein S16