J3_9PKD_021

3D structure

PDB id

9PKD (explore in PDB, NAKB, or RNA 3D Hub)

Description

In situ CHX and HHT treated 80S consensus ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.42 Å

Loop

Sequence

GGGGGCG*CUCGCUUCUGGCGCCAAG*CGAC

Length

29 nucleotides

Bulged bases

9PKD|1|L5|C|4114, 9PKD|1|L5|G|4115, 9PKD|1|L5|C|4116, 9PKD|1|L5|U|4117, 9PKD|1|L5|U|4118, 9PKD|1|L5|C|4119, 9PKD|1|L5|U|4120, 9PKD|1|L5|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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

9PKD|1|L5|G|4091
9PKD|1|L5|G|4092
9PKD|1|L5|G|4093
9PKD|1|L5|G|4094
9PKD|1|L5|G|4095
9PKD|1|L5|C|4096
9PKD|1|L5|G|4097
*
9PKD|1|L5|C|4112
9PKD|1|L5|U|4113
9PKD|1|L5|C|4114
9PKD|1|L5|G|4115
9PKD|1|L5|C|4116
9PKD|1|L5|U|4117
9PKD|1|L5|U|4118
9PKD|1|L5|C|4119
9PKD|1|L5|U|4120
9PKD|1|L5|G|4121
9PKD|1|L5|G|4122
9PKD|1|L5|C|4123
9PKD|1|L5|G|4124
9PKD|1|L5|C|4125
9PKD|1|L5|C|4126
9PKD|1|L5|A|4127
9PKD|1|L5|A|4128
9PKD|1|L5|G|4129
*
9PKD|1|L5|C|4155
9PKD|1|L5|G|4156
9PKD|1|L5|A|4157
9PKD|1|L5|C|4158

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LA

60S ribosomal protein L8

Chain LG

60S ribosomal protein L7a

Chain LX

60S ribosomal protein L23a

Chain LZ

60S ribosomal protein L27

Chain Lc

60S ribosomal protein L30

Chain Lg

60S ribosomal protein L34

Chain Lp

60S ribosomal protein L37a

Chain SB

40S ribosomal protein S3a