J4_1KD1_001

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

CC*GAGUAG*CGAAUAAC*GAAG

Length

20 nucleotides

Bulged bases

1KD1|1|A|A|411

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

J4_1KD1_001 not in the Motif Atlas

Homologous match to J4_4V9F_001

Geometric discrepancy: 0.0318

The information below is about J4_4V9F_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.1

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-cWW

Number of instances in this motif group

10

Unit IDs

1KD1|1|A|C|239
1KD1|1|A|C|240
*
1KD1|1|A|G|379
1KD1|1|A|A|380
1KD1|1|A|G|381
1KD1|1|A|U|382
1KD1|1|A|A|383
1KD1|1|A|G|384
*
1KD1|1|A|C|405
1KD1|1|A|G|406
1KD1|1|A|A|407
1KD1|1|A|A|408
1KD1|1|A|U|409
1KD1|1|A|A|410
1KD1|1|A|A|411
1KD1|1|A|C|412
*
1KD1|1|A|G|428
1KD1|1|A|A|429
1KD1|1|A|A|430
1KD1|1|A|G|431

Current chains

Chain A

23S RRNA

Nearby chains

Chain N

RIBOSOMAL PROTEIN L15E