IL_5HD1_176

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

GUGGAUG*CUGAAAC

Length

14 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_176 not in the Motif Atlas

Homologous match to IL_7RQB_001

Geometric discrepancy: 0.0522

The information below is about IL_7RQB_001

Detailed Annotation

Triple sheared with non-canonical cWW

Broad Annotation

Triple sheared

Motif group

IL_66414.6

Basepair signature

cWW-L-R-tSH-tSH-tHS-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5HD1|1|2A|G|23
5HD1|1|2A|U|24
5HD1|1|2A|G|25
5HD1|1|2A|G|26
5HD1|1|2A|A|27
5HD1|1|2A|U|28
5HD1|1|2A|G|29
*
5HD1|1|2A|C|534
5HD1|1|2A|U|535
5HD1|1|2A|G|536
5HD1|1|2A|A|537
5HD1|1|2A|A|538
5HD1|1|2A|A|539
5HD1|1|2A|C|540

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22