IL_4Y4O_043

3D structure

PDB id

4Y4O (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases (A, C, G, U)

1134A

QA status

Missing nucleotides: 1133, 1134, 1135, 1136, 1137, 1146, 1147, 1148

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_4Y4O_043 not in the Motif Atlas

Geometric match to IL_1MMS_002

Geometric discrepancy: 0.1162

The information below is about IL_1MMS_002

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_05564.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

14

Unit IDs

4Y4O|1|1A|G|1133
4Y4O|1|1A|A|1134
4Y4O|1|1A|G|1135
4Y4O|1|1A|U|1136
4Y4O|1|1A|G|1137
*
4Y4O|1|1A|C|1146
4Y4O|1|1A|U|1147
4Y4O|1|1A|C|1148

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L36

Chain 1Q

50S ribosomal protein L16