J3_8YLD_011

3D structure

PDB id

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

Description

State 4a (S4a) of yeast 80S ribosome bound to 2 tRNAs and open eEF3 and eEF2 during translocation

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CUUAAUUU*GGGGAAACUCAC*GGCCG

Length

25 nucleotides

Bulged bases

8YLD|1|2|G|1199, 8YLD|1|2|G|1201, 8YLD|1|2|A|1203

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_8YLD_011 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.174

The information below is about J3_8C3A_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_83516.3

Basepair signature

cWW-F-F-F-tWW-F-tSH-tSS-cSS-F-F-F-F-F-cWW-cWW-F-F-F

Number of instances in this motif group

4

Unit IDs

8YLD|1|2|C|1180
8YLD|1|2|U|1181
8YLD|1|2|U|1182
8YLD|1|2|A|1183
8YLD|1|2|A|1184
8YLD|1|2|U|1185
8YLD|1|2|U|1186
8YLD|1|2|U|1187
*
8YLD|1|2|G|1198
8YLD|1|2|G|1199
8YLD|1|2|G|1200
8YLD|1|2|G|1201
8YLD|1|2|A|1202
8YLD|1|2|A|1203
8YLD|1|2|A|1204
8YLD|1|2|C|1205
8YLD|1|2|U|1206
8YLD|1|2|C|1207
8YLD|1|2|A|1208
8YLD|1|2|C|1209
*
8YLD|1|2|G|1454
8YLD|1|2|G|1455
8YLD|1|2|C|1456
8YLD|1|2|C|1457
8YLD|1|2|G|1458

Current chains

Chain 2

18S rRNA

Nearby chains

Chain SE

Small ribosomal subunit protein uS19

Chain SH

Small ribosomal subunit protein uS13A

Chain SJ

Small ribosomal subunit protein uS10

Chain SM

Small ribosomal subunit protein uS14A

Chain SN

Small ribosomal subunit protein eS31

Chain s

Transfer RNA; tRNA