IL_1VQP_083

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

GUC*GGCUU

Length

8 nucleotides

Bulged bases

1VQP|1|0|C|2526

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_083 not in the Motif Atlas

Homologous match to IL_4V9F_084

Geometric discrepancy: 0.0839

The information below is about IL_4V9F_084

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform with extra cWW

Motif group

IL_51387.2

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

20

Unit IDs

1VQP|1|0|G|2494
1VQP|1|0|U|2495
1VQP|1|0|C|2496
*
1VQP|1|0|G|2524
1VQP|1|0|G|2525
1VQP|1|0|C|2526
1VQP|1|0|U|2527
1VQP|1|0|U|2528

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 4

5'-R(*(DC)P*(DC)P*(PPU)*(LOF)P*(PO2)P*AP*C*C)-3'

Chain H

50S RIBOSOMAL PROTEIN L10E