J3_4Y4O_003

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

GGA*UUUAAAG*CAC

Length

13 nucleotides

Bulged bases (A, C, G, U)

None detected

QA status

Missing nucleotides: 1101, 1102, 1103, 1127, 1128, 1129, 1130, 1131, 1132, 1133, 1148, 1149, 1150

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

J3_4Y4O_003 not in the Motif Atlas

Homologous match to J3_5J7L_040

Geometric discrepancy: 0.1836

The information below is about J3_5J7L_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_28621.3

Basepair signature

cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW

Number of instances in this motif group

7

Unit IDs

4Y4O|1|1A|G|1101
4Y4O|1|1A|G|1102
4Y4O|1|1A|A|1103
*
4Y4O|1|1A|U|1127
4Y4O|1|1A|U|1128
4Y4O|1|1A|U|1129
4Y4O|1|1A|A|1130
4Y4O|1|1A|A|1131
4Y4O|1|1A|A|1132
4Y4O|1|1A|G|1133
*
4Y4O|1|1A|C|1148
4Y4O|1|1A|A|1149
4Y4O|1|1A|C|1150

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L36