IL_8CDL_064

3D structure

PDB id

8CDL (explore in PDB, NAKB, or RNA 3D Hub)

Description

80S S. cerevisiae ribosome with ligands in hybrid-2 pre-translocation (PRE-H2) complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.72 Å

Loop

Sequence

GUAGU(A2M)(OMG)C*GCGAAAC

Length

15 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: A2M, 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

IL_8CDL_064 not in the Motif Atlas

Geometric match to IL_4V9F_012

Geometric discrepancy: 0.2563

The information below is about IL_4V9F_012

Detailed Annotation

8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_59724.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW

Number of instances in this motif group

1

Unit IDs

8CDL|1|AA|G|1444
8CDL|1|AA|U|1445
8CDL|1|AA|A|1446
8CDL|1|AA|G|1447
8CDL|1|AA|U|1448
8CDL|1|AA|A2M|1449
8CDL|1|AA|OMG|1450
8CDL|1|AA|C|1451
*
8CDL|1|AA|G|2353
8CDL|1|AA|C|2354
8CDL|1|AA|G|2355
8CDL|1|AA|A|2356
8CDL|1|AA|A|2357
8CDL|1|AA|A|2358
8CDL|1|AA|C|2359

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain B

60S ribosomal protein L17-A

Chain CC

5.8S ribosomal RNA; 5.8S rRNA

Chain GG

60S ribosomal protein L4-A