HL_5HD1_135

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

CGUAAUAG

Length

8 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

HL_5HD1_135 not in the Motif Atlas

Homologous match to HL_6PRV_002

Geometric discrepancy: 0.2733

The information below is about HL_6PRV_002

Detailed Annotation

GNRA wlth tandem sheared

Broad Annotation

No text annotation

Motif group

HL_81538.2

Basepair signature

cWW-tSH-F-F-F-F

Number of instances in this motif group

16

Unit IDs

5HD1|1|2A|C|1137
5HD1|1|2A|G|1138
5HD1|1|2A|U|1139
5HD1|1|2A|A|1140
5HD1|1|2A|A|1141
5HD1|1|2A|U|1142
5HD1|1|2A|A|1143
5HD1|1|2A|G|1144

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L36