IL_5FDU_198

3D structure

PDB id

5FDU (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GGA*UAACC

Length

8 nucleotides

Bulged bases

5FDU|1|2A|G|776, 5FDU|1|2A|A|788, 5FDU|1|2A|A|789, 5FDU|1|2A|C|790

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_5FDU_198 not in the Motif Atlas

Homologous match to IL_7RQB_023

Geometric discrepancy: 0.0674

The information below is about IL_7RQB_023

Detailed Annotation

Multiple bulged bases

Broad Annotation

No text annotation

Motif group

IL_90991.6

Basepair signature

cWW-cWW

Number of instances in this motif group

7

Unit IDs

5FDU|1|2A|G|775
5FDU|1|2A|G|776
5FDU|1|2A|A|777
*
5FDU|1|2A|U|787
5FDU|1|2A|A|788
5FDU|1|2A|A|789
5FDU|1|2A|C|790
5FDU|1|2A|C|791

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2D

50S ribosomal protein L2

Chain 2F

50S ribosomal protein L4

Chain 2W

50S ribosomal protein L22