IL_1KD1_061

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

GGAA*UC

Length

6 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_1KD1_061 not in the Motif Atlas

Homologous match to IL_4V9F_061

Geometric discrepancy: 0.0572

The information below is about IL_4V9F_061

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

No text annotation

Motif group

IL_74641.2

Basepair signature

cWW-tSH-cWW-L

Number of instances in this motif group

33

Unit IDs

1KD1|1|A|G|1744
1KD1|1|A|G|1745
1KD1|1|A|A|1746
1KD1|1|A|A|1747
*
1KD1|1|A|U|2034
1KD1|1|A|C|2035

Current chains

Chain A

23S RRNA

Nearby chains

Chain D

RIBOSOMAL PROTEIN L3

Chain L

RIBOSOMAL PROTEIN L14