HL_1KD1_010

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

UUGGAACA

Length

8 nucleotides

Bulged bases

1KD1|1|A|C|318

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

HL_1KD1_010 not in the Motif Atlas

Homologous match to HL_4V9F_010

Geometric discrepancy: 0.0447

The information below is about HL_4V9F_010

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_13999.3

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

1KD1|1|A|U|312
1KD1|1|A|U|313
1KD1|1|A|G|314
1KD1|1|A|G|315
1KD1|1|A|A|316
1KD1|1|A|A|317
1KD1|1|A|C|318
1KD1|1|A|A|319

Current chains

Chain A

23S RRNA

Nearby chains

Chain E

RIBOSOMAL PROTEIN L4

Chain U

RIBOSOMAL PROTEIN L24

Chain Z

RIBOSOMAL PROTEIN L32E