J5_7XNX_005

3D structure

PDB id

7XNX (explore in PDB, NAKB, or RNA 3D Hub)

Description

High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cells

Experimental method

ELECTRON MICROSCOPY

Resolution

2.7 Å

Loop

Sequence

UUGA*UUUG*CA*(OMU)(OMG)*CAGAAAA

Length

19 nucleotides

Bulged bases

7XNX|1|L1|G|3922, 7XNX|1|L1|A|4376, 7XNX|1|L1|G|4377, 7XNX|1|L1|A|4378, 7XNX|1|L1|A|4379

QA status

Modified nucleotides: OMU, OMG

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_7XNX_005 not in the Motif Atlas

Homologous match to J5_8P9A_015

Geometric discrepancy: 0.3012

The information below is about J5_8P9A_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_96125.1

Basepair signature

cWW-cWH-cWH-tSS-cWW-cWW-cWW-F-cWW

Number of instances in this motif group

6

Unit IDs

7XNX|1|L1|U|3920
7XNX|1|L1|U|3921
7XNX|1|L1|G|3922
7XNX|1|L1|A|3923
*
7XNX|1|L1|U|4188
7XNX|1|L1|U|4189
7XNX|1|L1|U|4190
7XNX|1|L1|G|4191
*
7XNX|1|L1|C|4204
7XNX|1|L1|A|4205
*
7XNX|1|L1|OMU|4227
7XNX|1|L1|OMG|4228
*
7XNX|1|L1|C|4375
7XNX|1|L1|A|4376
7XNX|1|L1|G|4377
7XNX|1|L1|A|4378
7XNX|1|L1|A|4379
7XNX|1|L1|A|4380
7XNX|1|L1|A|4381

Current chains

Chain L1

28S rRNA

Nearby chains

Chain CC

Transfer RNA; tRNA

Chain LA

60S ribosomal protein L8

Chain LN

60S ribosomal protein L15

Chain LQ

60S ribosomal protein L18

Chain LT

60S ribosomal protein L21

Chain La

60S ribosomal protein L27

Chain Lb

60S ribosomal protein L29

Chain Lo

60S ribosomal protein L36a