IL_5D8H_003

3D structure

PDB id

5D8H (explore in PDB, NAKB, or RNA 3D Hub)

Description

CRYSTAL STRUCTURE OF THE BASE OF THE RIBOSOMAL P STALK FROM METHANOCOCCUS JANNASCHII WITH ANTIBIOTIC THIOSTREPTON

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases

5D8H|1|A|A|1198

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

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.2

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

24

Unit IDs

5D8H|1|A|G|1197
5D8H|1|A|A|1198
5D8H|1|A|G|1199
5D8H|1|A|U|1200
5D8H|1|A|G|1201
*
5D8H|1|A|C|1210
5D8H|1|A|U|1211
5D8H|1|A|C|1212

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L10

Chain C

50S ribosomal protein L11