J5_4Y4O_010

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

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

4Y4O|1|2A|U|50

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_4Y4O_010 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.0435

The information below is about J5_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

4Y4O|1|2A|C|47
4Y4O|1|2A|G|48
4Y4O|1|2A|A|49
4Y4O|1|2A|U|50
4Y4O|1|2A|G|51
4Y4O|1|2A|A|52
4Y4O|1|2A|A|53
4Y4O|1|2A|G|54
*
4Y4O|1|2A|C|116
4Y4O|1|2A|G|117
4Y4O|1|2A|A|118
4Y4O|1|2A|A|119
4Y4O|1|2A|U|120
4Y4O|1|2A|G|121
*
4Y4O|1|2A|C|130
4Y4O|1|2A|G|131
*
4Y4O|1|2A|C|148
4Y4O|1|2A|A|149
4Y4O|1|2A|C|150
*
4Y4O|1|2A|G|176
4Y4O|1|2A|G|177
4Y4O|1|2A|G|178

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2X

50S ribosomal protein L23