J5_5DGF_010

3D structure

PDB id

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

Description

Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

AUAGUUCCUUUACUACAUGG*CAUGCUUAAAA*UG*CGAAU*AUGGUU

Length

44 nucleotides

Bulged bases

5DGF|1|2|U|128, 5DGF|1|2|U|132, 5DGF|1|2|U|133, 5DGF|1|2|C|136, 5DGF|1|2|U|137, 5DGF|1|2|A|140, 5DGF|1|2|U|141, 5DGF|1|2|U|178

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

5DGF|1|2|A|124
5DGF|1|2|U|125
5DGF|1|2|A|126
5DGF|1|2|G|127
5DGF|1|2|U|128
5DGF|1|2|U|129
5DGF|1|2|C|130
5DGF|1|2|C|131
5DGF|1|2|U|132
5DGF|1|2|U|133
5DGF|1|2|U|134
5DGF|1|2|A|135
5DGF|1|2|C|136
5DGF|1|2|U|137
5DGF|1|2|A|138
5DGF|1|2|C|139
5DGF|1|2|A|140
5DGF|1|2|U|141
5DGF|1|2|G|142
5DGF|1|2|G|143
*
5DGF|1|2|C|172
5DGF|1|2|A|173
5DGF|1|2|U|174
5DGF|1|2|G|175
5DGF|1|2|C|176
5DGF|1|2|U|177
5DGF|1|2|U|178
5DGF|1|2|A|179
5DGF|1|2|A|180
5DGF|1|2|A|181
5DGF|1|2|A|182
*
5DGF|1|2|U|203
5DGF|1|2|G|204
*
5DGF|1|2|C|263
5DGF|1|2|G|264
5DGF|1|2|A|265
5DGF|1|2|A|266
5DGF|1|2|U|267
*
5DGF|1|2|A|288
5DGF|1|2|U|289
5DGF|1|2|G|290
5DGF|1|2|G|291
5DGF|1|2|U|292
5DGF|1|2|U|293

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain S4

40S ribosomal protein S4-A

Chain S6

40S ribosomal protein S6-A

Chain S8

40S ribosomal protein S8-A