IL_1KD1_087

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*CAAG

Length

6 nucleotides

Bulged bases

1KD1|1|A|A|2577

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_087 not in the Motif Atlas

Homologous match to IL_4V9F_089

Geometric discrepancy: 0.0495

The information below is about IL_4V9F_089

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_94991.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

17

Unit IDs

1KD1|1|A|U|2557
1KD1|1|A|G|2558
*
1KD1|1|A|C|2575
1KD1|1|A|A|2576
1KD1|1|A|A|2577
1KD1|1|A|G|2578

Current chains

Chain A

23S RRNA

Nearby chains