IL_5F8K_252

3D structure

PDB id

5F8K (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Bac7(1-16) antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CGAAA(5MU)UC(5MC)UUG*C(5MC)UG

Length

16 nucleotides

Bulged bases

5F8K|1|2A|A|1938, 5F8K|1|2A|C|1941, 5F8K|1|2A|U|1944, 5F8K|1|2A|U|1963

QA status

Modified nucleotides: 5MU, 5MC

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_5F8K_252 not in the Motif Atlas

Geometric match to IL_4WF9_077

Geometric discrepancy: 0.1325

The information below is about IL_4WF9_077

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_84014.1

Basepair signature

cWW-L-R-cHW-cWW-L-L-tSW-L

Number of instances in this motif group

8

Unit IDs

5F8K|1|2A|C|1934
5F8K|1|2A|G|1935
5F8K|1|2A|A|1936
5F8K|1|2A|A|1937
5F8K|1|2A|A|1938
5F8K|1|2A|5MU|1939
5F8K|1|2A|U|1940
5F8K|1|2A|C|1941
5F8K|1|2A|5MC|1942
5F8K|1|2A|U|1943
5F8K|1|2A|U|1944
5F8K|1|2A|G|1945
*
5F8K|1|2A|C|1961
5F8K|1|2A|5MC|1962
5F8K|1|2A|U|1963
5F8K|1|2A|G|1964

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2a

Small subunit ribosomal RNA; SSU rRNA