J5_7XNX_002

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

GGAGU(OMC)*G(2MG)AC*GUUC*GCC*GCAGAU(OMC)

Length

24 nucleotides

Bulged bases

7XNX|1|L1|C|2289, 7XNX|1|L1|U|2350

QA status

Modified nucleotides: OMC, 2MG

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_002 not in the Motif Atlas

Homologous match to J5_8C3A_002

Geometric discrepancy: 0.0644

The information below is about J5_8C3A_002

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

7XNX|1|L1|G|1335
7XNX|1|L1|G|1336
7XNX|1|L1|A|1337
7XNX|1|L1|G|1338
7XNX|1|L1|U|1339
7XNX|1|L1|OMC|1340
*
7XNX|1|L1|G|1516
7XNX|1|L1|2MG|1517
7XNX|1|L1|A|1518
7XNX|1|L1|C|1519
*
7XNX|1|L1|G|1658
7XNX|1|L1|U|1659
7XNX|1|L1|U|1660
7XNX|1|L1|C|1661
*
7XNX|1|L1|G|2288
7XNX|1|L1|C|2289
7XNX|1|L1|C|2290
*
7XNX|1|L1|G|2345
7XNX|1|L1|C|2346
7XNX|1|L1|A|2347
7XNX|1|L1|G|2348
7XNX|1|L1|A|2349
7XNX|1|L1|U|2350
7XNX|1|L1|OMC|2351

Current chains

Chain L1

28S rRNA

Nearby chains

Chain L3

5.8S ribosomal RNA; 5.8S rRNA

Chain LC

60S ribosomal protein L4

Chain LL

60S ribosomal protein L13

Chain LN

60S ribosomal protein L15

Chain La

60S ribosomal protein L27

Chain Le

60S ribosomal protein L32

Chain Lr

60S ribosomal protein L28