J5_12DQ_015

3D structure

PDB id

12DQ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of Thermus thermophilus 70S ribosome in complex with sparsomycin, protein Y, and P-site MTI-tripeptidyl-tRNA analog ACCA-ITM at 2.75A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.75 Å

Loop

Sequence

GCAAGUUGG*UG*CC*GUGAACAGG*CGC

Length

25 nucleotides

Bulged bases

12DQ|1|2A|G|1758, 12DQ|1|2A|G|1763

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_12DQ_015 not in the Motif Atlas

Homologous match to J5_7A0S_005

Geometric discrepancy: 0.0879

The information below is about J5_7A0S_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_99177.4

Basepair signature

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

Number of instances in this motif group

12

Unit IDs

12DQ|1|2A|G|1674
12DQ|1|2A|C|1675
12DQ|1|2A|A|1676
12DQ|1|2A|A|1677
12DQ|1|2A|G|1678
12DQ|1|2A|U|1679
12DQ|1|2A|U|1680
12DQ|1|2A|G|1681
12DQ|1|2A|G|1682
*
12DQ|1|2A|U|1706
12DQ|1|2A|G|1707
*
12DQ|1|2A|C|1751
12DQ|1|2A|C|1752
*
12DQ|1|2A|G|1756
12DQ|1|2A|U|1757
12DQ|1|2A|G|1758
12DQ|1|2A|A|1759
12DQ|1|2A|A|1760
12DQ|1|2A|C|1761
12DQ|1|2A|A|1762
12DQ|1|2A|G|1763
12DQ|1|2A|G|1764
*
12DQ|1|2A|C|1988
12DQ|1|2A|G|1989
12DQ|1|2A|C|1990

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2E

50S ribosomal protein L3

Chain 2O

50S ribosomal protein L14

Chain 2T

50S ribosomal protein L19

Chain 2a

Small subunit ribosomal RNA; SSU rRNA