IL_6ND5_316

3D structure

PDB id

6ND5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with chloramphenicol and bound to mRNA and A-, P-, and E-site tRNAs at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

GGAGUACG*UGAAAC

Length

14 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_6ND5_316 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.0886

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_41756.4

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

4

Unit IDs

6ND5|1|2a|G|887
6ND5|1|2a|G|888
6ND5|1|2a|A|889
6ND5|1|2a|G|890
6ND5|1|2a|U|891
6ND5|1|2a|A|892
6ND5|1|2a|C|893
6ND5|1|2a|G|894
*
6ND5|1|2a|U|905
6ND5|1|2a|G|906
6ND5|1|2a|A|907
6ND5|1|2a|A|908
6ND5|1|2a|A|909
6ND5|1|2a|C|910

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2l

30S ribosomal protein S12

Chain 2q

30S ribosomal protein S17