J3_6FYX_006

3D structure

PDB id

6FYX (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.5 Å

Loop

Sequence

CUUAAUUU*GGGGAAACUCAC*GGCCG

Length

25 nucleotides

Bulged bases

6FYX|1|2|G|1198, 6FYX|1|2|G|1200, 6FYX|1|2|A|1202

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_6FYX_006 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.0799

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

6FYX|1|2|C|1179
6FYX|1|2|U|1180
6FYX|1|2|U|1181
6FYX|1|2|A|1182
6FYX|1|2|A|1183
6FYX|1|2|U|1184
6FYX|1|2|U|1185
6FYX|1|2|U|1186
*
6FYX|1|2|G|1197
6FYX|1|2|G|1198
6FYX|1|2|G|1199
6FYX|1|2|G|1200
6FYX|1|2|A|1201
6FYX|1|2|A|1202
6FYX|1|2|A|1203
6FYX|1|2|C|1204
6FYX|1|2|U|1205
6FYX|1|2|C|1206
6FYX|1|2|A|1207
6FYX|1|2|C|1208
*
6FYX|1|2|G|1452
6FYX|1|2|G|1453
6FYX|1|2|C|1454
6FYX|1|2|C|1455
6FYX|1|2|G|1456

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain P

KLLA0F07843p

Chain S

KLLA0B01562p

Chain U

KLLA0F25542p

Chain d

40S ribosomal protein S29

Chain f

Ubiquitin-40S ribosomal protein S27a

Chain i

Eukaryotic translation initiation factor 1A

Chain l

Eukaryotic translation initiation factor 2 subunit beta