HL_1KD1_072

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

CGCGAG

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

HL_1KD1_072 not in the Motif Atlas

Homologous match to HL_4V9F_072

Geometric discrepancy: 0.0442

The information below is about HL_4V9F_072

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_34789.4

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

399

Unit IDs

1KD1|1|B|C|3089
1KD1|1|B|G|3090
1KD1|1|B|C|3091
1KD1|1|B|G|3092
1KD1|1|B|A|3093
1KD1|1|B|G|3094

Current chains

Chain B

5S RRNA

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA

Chain J

RIBOSOMAL PROTEIN L10E

Chain X

RIBOSOMAL PROTEIN L30