IL_1Y39_004

3D structure

PDB id

1Y39 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Co-evolution of protein and RNA structures within a highly conserved ribosomal domain

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases

1Y39|1|D|A|338

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_1Y39_004 not in the Motif Atlas

Geometric match to IL_1MMS_002

Geometric discrepancy: 0.0952

The information below is about IL_1MMS_002

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_51387.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

21

Unit IDs

1Y39|1|D|G|337
1Y39|1|D|A|338
1Y39|1|D|G|339
1Y39|1|D|U|340
1Y39|1|D|G|341
*
1Y39|1|D|C|350
1Y39|1|D|U|351
1Y39|1|D|C|352

Current chains

Chain D

58 Nucleotide Ribosomal 23S RNA Domain

Nearby chains

Chain A

50S ribosomal protein L11

Chain B

50S ribosomal protein L11

Chain C

Large subunit ribosomal RNA; LSU rRNA