J5_9H4N_004

3D structure

PDB id

9H4N (explore in PDB, NAKB, or RNA 3D Hub)

Description

RPL13 (eL13)-mutant 80S ribosome from mouse

Experimental method

ELECTRON MICROSCOPY

Resolution

2.46 Å

Loop

Sequence

AGAAGAGC*GGAUAACUG*CUU(5MC)GAUGUC*GGUUUAG*UAGUUU

Length

40 nucleotides

Bulged bases

9H4N|1|A2|A|3564, 9H4N|1|A2|A|4046, 9H4N|1|A2|G|4103, 9H4N|1|A2|U|4104, 9H4N|1|A2|U|4207, 9H4N|1|A2|U|4208

QA status

Modified nucleotides: 5MC

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

9H4N|1|A2|A|3559
9H4N|1|A2|G|3560
9H4N|1|A2|A|3561
9H4N|1|A2|A|3562
9H4N|1|A2|G|3563
9H4N|1|A2|A|3564
9H4N|1|A2|G|3565
9H4N|1|A2|C|3566
*
9H4N|1|A2|G|4044
9H4N|1|A2|G|4045
9H4N|1|A2|A|4046
9H4N|1|A2|U|4047
9H4N|1|A2|A|4048
9H4N|1|A2|A|4049
9H4N|1|A2|C|4050
9H4N|1|A2|U|4051
9H4N|1|A2|G|4052
*
9H4N|1|A2|C|4096
9H4N|1|A2|U|4097
9H4N|1|A2|U|4098
9H4N|1|A2|5MC|4099
9H4N|1|A2|G|4100
9H4N|1|A2|A|4101
9H4N|1|A2|U|4102
9H4N|1|A2|G|4103
9H4N|1|A2|U|4104
9H4N|1|A2|C|4105
*
9H4N|1|A2|G|4180
9H4N|1|A2|G|4181
9H4N|1|A2|U|4182
9H4N|1|A2|U|4183
9H4N|1|A2|U|4184
9H4N|1|A2|A|4185
9H4N|1|A2|G|4186
*
9H4N|1|A2|U|4204
9H4N|1|A2|A|4205
9H4N|1|A2|G|4206
9H4N|1|A2|U|4207
9H4N|1|A2|U|4208
9H4N|1|A2|U|4209

Current chains

Chain A2

28S ribosomal RNA

Nearby chains

Chain D2

Large ribosomal subunit protein uL2

Chain E2

Large ribosomal subunit protein uL3

Chain F2

Large ribosomal subunit protein uL4

Chain U2

60S ribosomal protein L27a

Chain V2

Large ribosomal subunit protein eL29