IL_5HD1_309

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

GAAACC*GACUGAC

Length

13 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

IL_5HD1_309 not in the Motif Atlas

Geometric match to IL_4LFB_019

Geometric discrepancy: 0.1272

The information below is about IL_4LFB_019

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_31561.1

Basepair signature

cWW-L-R-tWH-tWH-L-R-L-cWW

Number of instances in this motif group

1

Unit IDs

5HD1|1|2a|G|445
5HD1|1|2a|A|446
5HD1|1|2a|A|447
5HD1|1|2a|A|448
5HD1|1|2a|C|449
5HD1|1|2a|C|450
*
5HD1|1|2a|G|462
5HD1|1|2a|A|463
5HD1|1|2a|C|464
5HD1|1|2a|U|465
5HD1|1|2a|G|466
5HD1|1|2a|A|467
5HD1|1|2a|C|468

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2p

30S ribosomal protein S16