J5_1YIT_007

3D structure

PDB id

1YIT (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal Structure Of Virginiamycin M and S Bound To The 50S Ribosomal Subunit Of Haloarcula Marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CGAAGACC*GGAUAACAG*CCUCGAUGU*G(UR3)U(PSU)AG*CGGCUG

Length

38 nucleotides

Bulged bases

1YIT|1|0|A|2103, 1YIT|1|0|A|2483, 1YIT|1|0|C|2644, 1YIT|1|0|U|2645

QA status

Modified nucleotides: UR3, PSU

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

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

1YIT|1|0|C|2098
1YIT|1|0|G|2099
1YIT|1|0|A|2100
1YIT|1|0|A|2101
1YIT|1|0|G|2102
1YIT|1|0|A|2103
1YIT|1|0|C|2104
1YIT|1|0|C|2105
*
1YIT|1|0|G|2481
1YIT|1|0|G|2482
1YIT|1|0|A|2483
1YIT|1|0|U|2484
1YIT|1|0|A|2485
1YIT|1|0|A|2486
1YIT|1|0|C|2487
1YIT|1|0|A|2488
1YIT|1|0|G|2489
*
1YIT|1|0|C|2533
1YIT|1|0|C|2534
1YIT|1|0|U|2535
1YIT|1|0|C|2536
1YIT|1|0|G|2537
1YIT|1|0|A|2538
1YIT|1|0|U|2539
1YIT|1|0|G|2540
1YIT|1|0|U|2541
*
1YIT|1|0|G|2618
1YIT|1|0|UR3|2619
1YIT|1|0|U|2620
1YIT|1|0|PSU|2621
1YIT|1|0|A|2622
1YIT|1|0|G|2623
*
1YIT|1|0|C|2641
1YIT|1|0|G|2642
1YIT|1|0|G|2643
1YIT|1|0|C|2644
1YIT|1|0|U|2645
1YIT|1|0|G|2646

Current chains

Chain 0

23S RIBOSOMAL RNA

Nearby chains

Chain 8

VIRGINIAMYCIN S1

Chain A

50S RIBOSOMAL PROTEIN L2P

Chain B

50S RIBOSOMAL PROTEIN L3P

Chain C

50S RIBOSOMAL PROTEIN L4E

Chain L

50S RIBOSOMAL PROTEIN L15P