J4_4Y4P_030

3D structure

PDB id

4Y4P (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.5 Å

Loop

Sequence

A(4SU)AG*CAG*CGU(7MG)UCCUU*GAGU

Length

20 nucleotides

Bulged bases

4Y4P|1|2w|4SU|8, 4Y4P|1|2w|U|47, 4Y4P|1|2w|C|48

QA status

Modified nucleotides: 4SU, 7MG

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

J4_4Y4P_030 not in the Motif Atlas

Homologous match to J4_7U2I_014

Geometric discrepancy: 0.2892

The information below is about J4_7U2I_014

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_47701.1

Basepair signature

cWW-F-F-cWW-F-cWW-cWW-cWW-F-F-F-F

Number of instances in this motif group

1

Unit IDs

4Y4P|1|2w|A|7
4Y4P|1|2w|4SU|8
4Y4P|1|2w|A|9
4Y4P|1|2w|G|10
*
4Y4P|1|2w|C|25
4Y4P|1|2w|A|26
4Y4P|1|2w|G|27
*
4Y4P|1|2w|C|43
4Y4P|1|2w|G|44
4Y4P|1|2w|U|45
4Y4P|1|2w|7MG|46
4Y4P|1|2w|U|47
4Y4P|1|2w|C|48
4Y4P|1|2w|C|49
4Y4P|1|2w|U|50
4Y4P|1|2w|U|51
*
4Y4P|1|2w|G|63
4Y4P|1|2w|A|64
4Y4P|1|2w|G|65
4Y4P|1|2w|U|66

Current chains

Chain 2w

A-site and E-site tRNAs

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2Q

50S ribosomal protein L16