HL_5FDU_028

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

GUUGGCUUAGAAGCAGCCAUC

Length

21 nucleotides

Bulged bases

5FDU|1|1A|C|1122

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_5FDU_028 not in the Motif Atlas

Geometric match to HL_4KR9_003

Geometric discrepancy: 0.2674

The information below is about HL_4KR9_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_70782.2

Basepair signature

cWW-F

Number of instances in this motif group

4

Unit IDs

5FDU|1|1A|G|1105
5FDU|1|1A|U|1106
5FDU|1|1A|U|1107
5FDU|1|1A|G|1108
5FDU|1|1A|G|1109
5FDU|1|1A|C|1110
5FDU|1|1A|U|1111
5FDU|1|1A|U|1112
5FDU|1|1A|A|1113
5FDU|1|1A|G|1114
5FDU|1|1A|A|1115
5FDU|1|1A|A|1116
5FDU|1|1A|G|1117
5FDU|1|1A|C|1118
5FDU|1|1A|A|1119
5FDU|1|1A|G|1120
5FDU|1|1A|C|1121
5FDU|1|1A|C|1122
5FDU|1|1A|A|1123
5FDU|1|1A|U|1124
5FDU|1|1A|C|1125

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1Q

50S ribosomal protein L16

Chain 1Z

50S ribosomal protein L25