IL_5HD1_284

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

UGC*GUG

Length

6 nucleotides

Bulged bases

None detected

QA status

Self-complementary:

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_284 not in the Motif Atlas

Geometric match to IL_6IA2_005

Geometric discrepancy: 0.224

The information below is about IL_6IA2_005

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_87907.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

179

Unit IDs

5HD1|1|2B|U|8
5HD1|1|2B|G|9
5HD1|1|2B|C|10
*
5HD1|1|2B|G|111
5HD1|1|2B|U|112
5HD1|1|2B|G|113

Current chains

Chain 2B

5S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2S

50S ribosomal protein L18