J4_1VQP_008

3D structure

PDB id

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

Description

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

Experimental method

X-RAY DIFFRACTION

Resolution

2.25 Å

Loop

Sequence

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

1VQP|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_1VQP_008 not in the Motif Atlas

Homologous match to J4_4V9F_008

Geometric discrepancy: 0.0553

The information below is about J4_4V9F_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_93343.1

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

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

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain A

50S ribosomal protein L2P