J5_5AFI_004

3D structure

PDB id

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

Description

2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

5AFI|1|A|U|1758||||P_1, 5AFI|1|A|G|1763||||P_1

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_5AFI_004 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0843

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

5AFI|1|A|G|1674||||P_1
5AFI|1|A|C|1675||||P_1
5AFI|1|A|A|1676||||P_1
5AFI|1|A|A|1677||||P_1
5AFI|1|A|A|1678||||P_1
5AFI|1|A|A|1679||||P_1
5AFI|1|A|U|1680||||P_1
5AFI|1|A|G|1681||||P_1
5AFI|1|A|G|1682||||P_1
*
5AFI|1|A|C|1706||||P_1
5AFI|1|A|G|1707||||P_1
*
5AFI|1|A|U|1751||||P_1
5AFI|1|A|C|1752||||P_1
*
5AFI|1|A|G|1756||||P_1
5AFI|1|A|A|1757||||P_1
5AFI|1|A|U|1758||||P_1
5AFI|1|A|A|1759||||P_1
5AFI|1|A|C|1760||||P_1
5AFI|1|A|C|1761||||P_1
5AFI|1|A|A|1762||||P_1
5AFI|1|A|G|1763||||P_1
5AFI|1|A|C|1764||||P_1
*
5AFI|1|A|G|1988||||P_1
5AFI|1|A|G|1989||||P_1
5AFI|1|A|C|1990||||P_1

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain D

50S ribosomal protein L3

Chain K

50S ribosomal protein L14

Chain P

50S ribosomal protein L19

Chain a

Small subunit ribosomal RNA; SSU rRNA