IL_1KD1_067

3D structure

PDB id

1KD1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Co-crystal Structure of Spiramycin bound to the 50S Ribosomal Subunit of Haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

3 Å

Loop

Sequence

UG*UCAA

Length

6 nucleotides

Bulged bases

1KD1|1|A|C|1940, 1KD1|1|A|A|1941

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_1KD1_067 not in the Motif Atlas

Homologous match to IL_4V9F_067

Geometric discrepancy: 0.073

The information below is about IL_4V9F_067

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_71421.2

Basepair signature

cWW-cWW

Number of instances in this motif group

35

Unit IDs

1KD1|1|A|U|1897
1KD1|1|A|G|1898
*
1KD1|1|A|U|1939
1KD1|1|A|C|1940
1KD1|1|A|A|1941
1KD1|1|A|A|1942

Current chains

Chain A

23S RRNA

Nearby chains

Chain 1

RIBOSOMAL PROTEIN L37Ae

Chain C

RIBOSOMAL PROTEIN L2