Loop J5_4Y4O

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: AAAAGACC*GGAUAACA*UCG(2MA)UGUC*GGUUCAG*CGGUCU
Length: 37 nucleotides
Bulged bases: 4Y4O|1|2A|A|2062, 4Y4O|1|2A|A|2448, 4Y4O|1|2A|U|2449, 4Y4O|1|2A|U|2506, 4Y4O|1|2A|U|2585, 4Y4O|1|2A|U|2609
QA status: Modified nucleotides: 2MA

Sequence variability

R3DSVS

Structural variability across Equivalence Class

R3DMCS EC

Structural variability across Rfam

R3DMCS Rfam

Detailed Annotation: No text annotation
Broad Annotation: No text annotation
Motif group: J5_41473.1
Basepair signature: cWW-F-tWW-F-tHS-F-F-F-cWW-cWW-cWW-F-tHH-F-tHW-F-F-cWW-cWW-cWW-F-F-F
Number of instances in this motif group: 2

Unit IDs

4Y4O|1|2A|A|2057
4Y4O|1|2A|A|2058
4Y4O|1|2A|A|2059
4Y4O|1|2A|A|2060
4Y4O|1|2A|G|2061
4Y4O|1|2A|A|2062
4Y4O|1|2A|C|2063
4Y4O|1|2A|C|2064
*
4Y4O|1|2A|G|2446
4Y4O|1|2A|G|2447
4Y4O|1|2A|A|2448
4Y4O|1|2A|U|2449
4Y4O|1|2A|A|2450
4Y4O|1|2A|A|2451
4Y4O|1|2A|C|2452
4Y4O|1|2A|A|2453
*
4Y4O|1|2A|U|2500
4Y4O|1|2A|C|2501
4Y4O|1|2A|G|2502
4Y4O|1|2A|2MA|2503
4Y4O|1|2A|U|2504
4Y4O|1|2A|G|2505
4Y4O|1|2A|U|2506
4Y4O|1|2A|C|2507
*
4Y4O|1|2A|G|2582
4Y4O|1|2A|G|2583
4Y4O|1|2A|U|2584
4Y4O|1|2A|U|2585
4Y4O|1|2A|C|2586
4Y4O|1|2A|A|2587
4Y4O|1|2A|G|2588
*
4Y4O|1|2A|C|2606
4Y4O|1|2A|G|2607
4Y4O|1|2A|G|2608
4Y4O|1|2A|U|2609
4Y4O|1|2A|C|2610
4Y4O|1|2A|U|2611

Current chains

Chain 2A: 23S Ribosomal RNA

Nearby chains

Chain 25: 50S ribosomal protein L32
Chain 2D: 50S ribosomal protein L2
Chain 2E: 50S ribosomal protein L3
Chain 2F: 50S ribosomal protein L4
Chain 2P: 50S ribosomal protein L15
Chain 2Q: 50S ribosomal protein L16

J5_4Y4O_016