J4_1VQM_008

3D structure

PDB id

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

Description

The structure of the transition state analogue 'DAN' bound to the large ribosomal subunit of haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

1VQM|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_1VQM_008 not in the Motif Atlas

Homologous match to J4_4V9F_008

Geometric discrepancy: 0.0598

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

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

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain A

50S ribosomal protein L2P