J5_1VQP_006

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

GCAAGUUAG*UG*UC*GUGACUCGG*CAC

Length

25 nucleotides

Bulged bases

1VQP|1|0|G|1814, 1VQP|1|0|G|1819

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

J5_1VQP_006 not in the Motif Atlas

Homologous match to J5_4V9F_006

Geometric discrepancy: 0.0416

The information below is about J5_4V9F_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

1VQP|1|0|G|1752
1VQP|1|0|C|1753
1VQP|1|0|A|1754
1VQP|1|0|A|1755
1VQP|1|0|G|1756
1VQP|1|0|U|1757
1VQP|1|0|U|1758
1VQP|1|0|A|1759
1VQP|1|0|G|1760
*
1VQP|1|0|U|1784
1VQP|1|0|G|1785
*
1VQP|1|0|U|1807
1VQP|1|0|C|1808
*
1VQP|1|0|G|1812
1VQP|1|0|U|1813
1VQP|1|0|G|1814
1VQP|1|0|A|1815
1VQP|1|0|C|1816
1VQP|1|0|U|1817
1VQP|1|0|C|1818
1VQP|1|0|G|1819
1VQP|1|0|G|1820
*
1VQP|1|0|C|2029
1VQP|1|0|A|2030
1VQP|1|0|C|2031

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain B

50S ribosomal protein L3P

Chain K

50S ribosomal protein L14P

Chain P

50S ribosomal protein L19E