IL_5HD1_209

3D structure

PDB id

5HD1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

GGC*GCC

Length

6 nucleotides

Bulged bases

None detected

QA status

Self-complementary: GGC,GCC

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_5HD1_209 not in the Motif Atlas

Geometric match to IL_1YZ9_001

Geometric discrepancy: 0.1926

The information below is about IL_1YZ9_001

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_44258.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

301

Unit IDs

5HD1|1|2A|G|928
5HD1|1|2A|G|929
5HD1|1|2A|C|930
*
5HD1|1|2A|G|937
5HD1|1|2A|C|938
5HD1|1|2A|C|939

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2Z

50S ribosomal protein L25