J5_9TV2_004

3D structure

PDB id

9TV2 (explore in PDB, NAKB, or RNA 3D Hub)

Description

80S ribosomes from primary B-cells infected with delta v-snoRNA1 EBV

Experimental method

ELECTRON MICROSCOPY

Resolution

2.1 Å

Loop

Sequence

AGAAGACC*(OMG)GAUAACUG*CUU(5MC)GAUGUC*GG(UR3)(PSU)(PSU)AG*(PSU)AGUUU

Length

40 nucleotides

Bulged bases

9TV2|1|L5|A|3894, 9TV2|1|L5|A|4380, 9TV2|1|L5|G|4437, 9TV2|1|L5|U|4438, 9TV2|1|L5|U|4541, 9TV2|1|L5|U|4542

QA status

Modified nucleotides: OMG, 5MC, 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

9TV2|1|L5|A|3889
9TV2|1|L5|G|3890
9TV2|1|L5|A|3891
9TV2|1|L5|A|3892
9TV2|1|L5|G|3893
9TV2|1|L5|A|3894
9TV2|1|L5|C|3895
9TV2|1|L5|C|3896
*
9TV2|1|L5|OMG|4378
9TV2|1|L5|G|4379
9TV2|1|L5|A|4380
9TV2|1|L5|U|4381
9TV2|1|L5|A|4382
9TV2|1|L5|A|4383
9TV2|1|L5|C|4384
9TV2|1|L5|U|4385
9TV2|1|L5|G|4386
*
9TV2|1|L5|C|4430
9TV2|1|L5|U|4431
9TV2|1|L5|U|4432
9TV2|1|L5|5MC|4433
9TV2|1|L5|G|4434
9TV2|1|L5|A|4435
9TV2|1|L5|U|4436
9TV2|1|L5|G|4437
9TV2|1|L5|U|4438
9TV2|1|L5|C|4439
*
9TV2|1|L5|G|4514
9TV2|1|L5|G|4515
9TV2|1|L5|UR3|4516
9TV2|1|L5|PSU|4517
9TV2|1|L5|PSU|4518
9TV2|1|L5|A|4519
9TV2|1|L5|G|4520
*
9TV2|1|L5|PSU|4538
9TV2|1|L5|A|4539
9TV2|1|L5|G|4540
9TV2|1|L5|U|4541
9TV2|1|L5|U|4542
9TV2|1|L5|U|4543

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LA

60S ribosomal protein L8

Chain LB

Large ribosomal subunit protein uL3

Chain LC

60S ribosomal protein L4

Chain La

Large ribosomal subunit protein uL15

Chain Lb

60S ribosomal protein L29