IL_3CF5_039

3D structure

PDB id

3CF5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radiodurans

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases

3CF5|1|X|A|1099

QA status

Valid loop

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_3CF5_039 not in the Motif Atlas

Geometric match to IL_1MMS_002

Geometric discrepancy: 0.3668

The information below is about IL_1MMS_002

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_51387.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

21

Unit IDs

3CF5|1|X|G|1098
3CF5|1|X|A|1099
3CF5|1|X|G|1100
3CF5|1|X|U|1101
3CF5|1|X|G|1102
*
3CF5|1|X|C|1111
3CF5|1|X|U|1112
3CF5|1|X|C|1113

Current chains

Chain X

RRNA-23S RIBOSOMAL RNA

Nearby chains

Chain 4

50S RIBOSOMAL PROTEIN L36

Chain E

50S RIBOSOMAL PROTEIN L6

Chain F

50S RIBOSOMAL PROTEIN L11