IL_5MDZ_125

3D structure

PDB id

5MDZ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the 70S ribosome (empty A site)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

CUGCC*GAUG

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_5MDZ_125 not in the Motif Atlas

Homologous match to IL_5J7L_010

Geometric discrepancy: 0.0699

The information below is about IL_5J7L_010

Detailed Annotation

Minor groove platform related

Broad Annotation

Minor groove platform related

Motif group

IL_64231.5

Basepair signature

cWW-cWW-L-R-L-cWW

Number of instances in this motif group

11

Unit IDs

5MDZ|1|2|C|132
5MDZ|1|2|U|133
5MDZ|1|2|G|134
5MDZ|1|2|C|135
5MDZ|1|2|C|136
*
5MDZ|1|2|G|227
5MDZ|1|2|A|228
5MDZ|1|2|U|229
5MDZ|1|2|G|230

Current chains

Chain 2

16S ribosomal RNA

Nearby chains

Chain u

30S ribosomal protein S16

Chain y

30S ribosomal protein S20