J5_5XYM_005

3D structure

PDB id

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

Description

Large subunit of Mycobacterium smegmatis

Experimental method

ELECTRON MICROSCOPY

Resolution

3.08 Å

Loop

Sequence

GCAAAAUGC*GA*UG*CAAACCAGU*AAC

Length

25 nucleotides

Bulged bases

5XYM|1|A|A|1978, 5XYM|1|A|G|1983

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

J5_5XYM_005 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.1207

The information below is about J5_5J7L_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5XYM|1|A|G|1895
5XYM|1|A|C|1896
5XYM|1|A|A|1897
5XYM|1|A|A|1898
5XYM|1|A|A|1899
5XYM|1|A|A|1900
5XYM|1|A|U|1901
5XYM|1|A|G|1902
5XYM|1|A|C|1903
*
5XYM|1|A|G|1927
5XYM|1|A|A|1928
*
5XYM|1|A|U|1971
5XYM|1|A|G|1972
*
5XYM|1|A|C|1976
5XYM|1|A|A|1977
5XYM|1|A|A|1978
5XYM|1|A|A|1979
5XYM|1|A|C|1980
5XYM|1|A|C|1981
5XYM|1|A|A|1982
5XYM|1|A|G|1983
5XYM|1|A|U|1984
*
5XYM|1|A|A|2215
5XYM|1|A|A|2216
5XYM|1|A|C|2217

Current chains

Chain A

23S RNA

Nearby chains

Chain D

50S ribosomal protein L3

Chain K

50S ribosomal protein L14

Chain P

50S ribosomal protein L19