HL_5HD1_215

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

GCGCAAGC

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_215 not in the Motif Atlas

Geometric match to HL_8KAL_001

Geometric discrepancy: 0.2846

The information below is about HL_8KAL_001

Detailed Annotation

GNRA with extra cWW

Broad Annotation

GNRA with extra cWW

Motif group

HL_04259.3

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

7

Unit IDs

5HD1|1|1a|G|374
5HD1|1|1a|C|375
5HD1|1|1a|G|376
5HD1|1|1a|C|377
5HD1|1|1a|A|378
5HD1|1|1a|A|379
5HD1|1|1a|G|380
5HD1|1|1a|C|381

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1p

30S ribosomal protein S16