J3_8JDK_008

3D structure

PDB id

8JDK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.26 Å

Loop

Sequence

GGGG*CGCUUCUGGCGCCAAG*CGAC

Length

24 nucleotides

Bulged bases

8JDK|1|D|G|4115, 8JDK|1|D|C|4116, 8JDK|1|D|U|4117, 8JDK|1|D|U|4118, 8JDK|1|D|C|4119, 8JDK|1|D|U|4120, 8JDK|1|D|G|4121

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

J3_8JDK_008 not in the Motif Atlas

Homologous match to J3_8C3A_009

Geometric discrepancy: 0.5331

The information below is about J3_8C3A_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_02167.1

Basepair signature

cWW-F-F-F-F-F-cWW-F-tHH-tHS-cWW

Number of instances in this motif group

1

Unit IDs

8JDK|1|D|G|4091
8JDK|1|D|G|4092
8JDK|1|D|G|4093
8JDK|1|D|G|4094
*
8JDK|1|D|C|4114
8JDK|1|D|G|4115
8JDK|1|D|C|4116
8JDK|1|D|U|4117
8JDK|1|D|U|4118
8JDK|1|D|C|4119
8JDK|1|D|U|4120
8JDK|1|D|G|4121
8JDK|1|D|G|4122
8JDK|1|D|C|4123
8JDK|1|D|G|4124
8JDK|1|D|C|4125
8JDK|1|D|C|4126
8JDK|1|D|A|4127
8JDK|1|D|A|4128
8JDK|1|D|G|4129
*
8JDK|1|D|C|4155
8JDK|1|D|G|4156
8JDK|1|D|A|4157
8JDK|1|D|C|4158

Current chains

Chain D

28S ribosomal RNA

Nearby chains

Chain G

60S ribosomal protein L8

Chain M

60S ribosomal protein L7a

Chain c

60S ribosomal protein L23a

Chain e

60S ribosomal protein L27

Chain h

60S ribosomal protein L30

Chain l

60S ribosomal protein L34

Chain u

60S ribosomal protein L37a