J4_1VQ4_008

3D structure

PDB id

1VQ4 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The structure of the transition state analogue 'DAA' bound to the large ribosomal subunit of Haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

1VQ4|1|0|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_1VQ4_008 not in the Motif Atlas

Homologous match to J4_4V9F_008

Geometric discrepancy: 0.0463

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

1VQ4|1|0|C|1889
1VQ4|1|0|U|1890
1VQ4|1|0|G|1891
*
1VQ4|1|0|C|1946
1VQ4|1|0|G|1947
*
1VQ4|1|0|C|1965
1VQ4|1|0|U|1966
1VQ4|1|0|U|1967
1VQ4|1|0|A|1968
1VQ4|1|0|A|1969
1VQ4|1|0|G|1970
1VQ4|1|0|G|1971
1VQ4|1|0|U|1972
1VQ4|1|0|A|1973
1VQ4|1|0|G|1974
*
1VQ4|1|0|U|2008
1VQ4|1|0|G|2009
1VQ4|1|0|A|2010
1VQ4|1|0|A|2011
1VQ4|1|0|U|2012
1VQ4|1|0|G|2013

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain A

50S ribosomal protein L2P