IL_1KD1_013

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

CCGACCG*CCAGUACG

Length

15 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_013 not in the Motif Atlas

Homologous match to IL_4V9F_012

Geometric discrepancy: 0.0432

The information below is about IL_4V9F_012

Detailed Annotation

8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_59724.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW

Number of instances in this motif group

1

Unit IDs

1KD1|1|A|C|290
1KD1|1|A|C|291
1KD1|1|A|G|292
1KD1|1|A|A|293
1KD1|1|A|C|294
1KD1|1|A|C|295
1KD1|1|A|G|296
*
1KD1|1|A|C|355
1KD1|1|A|C|356
1KD1|1|A|A|357
1KD1|1|A|G|358
1KD1|1|A|U|359
1KD1|1|A|A|360
1KD1|1|A|C|361
1KD1|1|A|G|362

Current chains

Chain A

23S RRNA

Nearby chains