J4_1KD1_008

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

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

1KD1|1|A|U|2012

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_008 not in the Motif Atlas

Homologous match to J4_4V9F_008

Geometric discrepancy: 0.0394

The information below is about J4_4V9F_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_42306.1

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

5

Unit IDs

1KD1|1|A|C|1889
1KD1|1|A|U|1890
1KD1|1|A|G|1891
*
1KD1|1|A|C|1946
1KD1|1|A|G|1947
*
1KD1|1|A|C|1965
1KD1|1|A|U|1966
1KD1|1|A|U|1967
1KD1|1|A|A|1968
1KD1|1|A|A|1969
1KD1|1|A|G|1970
1KD1|1|A|G|1971
1KD1|1|A|U|1972
1KD1|1|A|A|1973
1KD1|1|A|G|1974
*
1KD1|1|A|U|2008
1KD1|1|A|G|2009
1KD1|1|A|A|2010
1KD1|1|A|A|2011
1KD1|1|A|U|2012
1KD1|1|A|G|2013

Current chains

Chain A

23S RRNA

Nearby chains

Chain 1

RIBOSOMAL PROTEIN L37Ae

Chain C

RIBOSOMAL PROTEIN L2