IL_5DAR_006

3D structure

PDB id

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

Description

CRYSTAL STRUCTURE OF THE BASE OF THE RIBOSOMAL P STALK FROM METHANOCOCCUS JANNASCHII

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases

5DAR|1|D|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

IL_5DAR_006 not in the Motif Atlas

Geometric match to IL_5D8H_003

Geometric discrepancy: 0.0603

The information below is about IL_5D8H_003

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

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

Current chains

Chain D

74 nt fragment of 23S rRNA

Nearby chains

Chain F

50S ribosomal protein L11