IL_1VQP_039

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

UCCCCAAG*CA

Length

10 nucleotides

Bulged bases

None detected

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

IL_1VQP_039 not in the Motif Atlas

Homologous match to IL_4V9F_038

Geometric discrepancy: 0.0525

The information below is about IL_4V9F_038

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_41203.4

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

11

Unit IDs

1VQP|1|0|U|1101
1VQP|1|0|C|1102
1VQP|1|0|C|1103
1VQP|1|0|C|1104
1VQP|1|0|C|1105
1VQP|1|0|A|1106
1VQP|1|0|A|1107
1VQP|1|0|G|1108
*
1VQP|1|0|C|1254
1VQP|1|0|A|1255

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain J

50S ribosomal protein L13P

Chain W

50S ribosomal protein L30P