Structure of PDB 3j81 Chain i Binding Site BS01

Receptor Information

>3j81 Chain i (length=111) Species: 4932 (Saccharomyces cerevisiae)

NTKGGKKGRRGKNDSDGPKRELIYKEEGQEYAQITKMLGNGRVEASCFDG
NKRMAHIRGKLRKKVWMGQGDIILVSLRDFQDDQCDVVHKYNLDEARTLK
NQGELPENAKI

Ligand information

>3j81 Chain 2 (length=1780)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacauggauaucug
ugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagag
auguauuuauuagauaaaaaaucaaugucuucggacuccuugaugauuca
uaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaaa
uuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuuc
aacggguaacggggaauaaggguucgauuccggagagggagccugagaaa
cggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccua
auucagggagguagugacaauaaauaacgauacagggcccauucgggucu
uguaauuggaaugaguacaauguaaauaccuuaacgaggaacaacuggag
ggcaagucuggugccagcagccgcgguaauuccagcuccaguagcguaua
uuaaaguuguugcaguuaaaaagcucguaguugaacuuugggucugguug
uccggucgguuuuucaaccggaucuuuccuucuggcuaaccuguacuccu
ugugggugcaggcgaaccaggacuuuuacuuugaaaaaauuagaguguuc
aaagcaggcgaaagcucgaauauauuagcauggaauaauggaauaggacg
uuugguucuauuuuguugguuucuaggaccaucguaaugauuaauaggga
cggucgggggcaucaguauucaauugucagaggugaaauucuuggauuua
uugaagacuaacuacugcgaaagcauuugccaaggacguuuucauuaauc
aagaacgaaaguuaggggaucgaagaugaucagauaccgucguagucuua
accauaaacuaugccgacuagggaucgggugguguuuuucuuaugaccca
cucggcaccuuacgagaaaucaaagucuuuggguucuggggggaguaugg
ucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccaggagug
gagccugcggcuuaauuugacucaacacggggaaacucaccagguccaga
cacaauaaggauugacagauugagagcucuuucuugauuuuguggguggu
ggugcauggccguucuuaguugguggagugauuugucugcuuaauugcga
uaacgaacgagaccuuaaccuacuaaauaggguugcuggcacuugccggu
ugacucuucuuagagggacuaucgguuucaagccgauggaaguuugaggc
aauaacaggucugugaugcccuuagacguucugggccgcacgcgcgcuac
acugacggagccagcgaguacaaccuuggccgagaggucuggguaaucuu
gugaaacuccgucgugcuggggauagagcauuguaauuauugcucuucaa
cgaggaauuccuaguaagcgcaagucaucagcuugcguugauuacguccc
ugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcuuagug
aggccucaggauuugcuuagagaagggggcaacuccaucucagagcgaag
aaucuggucaaacuuggucauuuagaggaacuaaaagucguaacaagguu
uccguaggugaaccugcggaaggaucauua

...<<<<<...[[[[>>>>>[[[..((((((................[[[
.[[[..<<....<<....<<..........>>...>>.>>......{{..
......[[[..{{..{{....[[[..................<.<..<<.
<<.......>>.>>.....>>.........<<<<<..<<....>>..>>>
>>[...((((((......<<<<<<<<<<<....>>>..............
)))))).....]...<<<<..<<<.....>>>.>>>>....]]]...}}}
}..]]].<<<....<<<....<<<<<<<<.......>>>>>>>>>>>...
...>>>...<<<.<<<<....>>>>....>>>.}}.<<.<<<........
..>>>.>>.<.<<....>>..>..]]]]]].........<<<....<<<.
....>>>..>>>...............<<.<<<<<<............>>
>>>>..>.>.....<<.................>>.........<<<<<(
(......<<<<.....<<..))>>.......>>>>.>>>>>..)))))).
]]].........[[[{{.......{{...[[[.[[.....<<<<<<<<<<
.....<<>>.....>>>>>>>>>.>....<<<<<<....<.<.<..<...
....>..>.>.>....>>>>>>...<<<<<.<<.......<<...<....
...>..<<.......>>...>>......>>.>>..>>>.........[[.
..((((((((....>>>>>>>>.))))))))..]].....]]....<<<<
<<.<<...<<<<..<<..<<<<<<.<...<<<......>>>......>.>
>>>>>..>>.......<<....>>...>>>>...>>>>>.>>>...]]].
..}}......<<<<<<<...<...<<<<.<.....>.>>>>...>>>>>>
>>..........<<<.<<.<<<..<<<<<<<<.<<.<.......>>>>>>
>>>>>..>>>...<<..}}>>...>>.....>>>.]]].<<<......<<
<<....>>>>....>>>..]]]]..<<<<<.<<<<<<<..<<.<<<<<<.
.<<<.<<<<<<......<<........>>..........<<<<<.<....
<<<<<.....<..<<..<<........>.>.>>.>....>>>>>...<<.
<<<..<<.<<<<<<....<<<.<<<<......>>...<<<......>>>.
..>>.>>>....<<<<<.<<..<<<<..<<<<<<<<<<<<....>>>>>>
.>>>>>>..>>>>.>>....<<<<<<.....>>>>>>.......>>>>>.
...>>>.>>>.....>>>>>>>.....>.>>>>>...>>.>>>>.>>>..
...<<<<<<<......<<.....<<<.<<<<....>>>.>>>>....>>.
......>>>>>>>......<....<<<<<<..........>>>>>>....
>.....>>>>>>....<<<<<<<<.......>>>>>>>>......>>...
>>>>>>>>>>.>>....<..<<.<..<<<<.<<....<<.<<<.<.<<<.
.<<<<..<...<<<<<....<..................>....>>>>>.
..>..>>>>..>>>.>.>>>.>>...>>.>>>>...>.>>...>.....<
<<<<<<<<<..>>>>>>>>>>.........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3j81 Structural changes enable start codon recognition by the eukaryotic translation initiation complex.
• Resolution: 4.0 Å
• Binding residue (original residue number in PDB): N5 K10 K11 R14 G15 K16 N17 K23 L42 G43 N44 R46 R62 G63 R66 K67 W70 M71
• Binding residue (residue number reindexed from 1): N1 K6 K7 R10 G11 K12 N13 K19 L38 G39 N40 R42 R58 G59 R62 K63 W66 M67

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003725 double-stranded RNA binding
• GO:0003743 translation initiation factor activity
• GO:0005515 protein binding
• GO:0019901 protein kinase binding
• GO:0031369 translation initiation factor binding
• GO:0043024 ribosomal small subunit binding

Biological Process

• GO:0001677 formation of translation initiation ternary complex
• GO:0001731 formation of translation preinitiation complex
• GO:0001732 formation of cytoplasmic translation initiation complex
• GO:0002188 translation reinitiation
• GO:0006412 translation
• GO:0006413 translational initiation

Cellular Component

• GO:0005737 cytoplasm
• GO:0010494 cytoplasmic stress granule
• GO:0016282 eukaryotic 43S preinitiation complex
• GO:0033290 eukaryotic 48S preinitiation complex

External links

• PDB: RCSB:3j81, PDBe:3j81, PDBj:3j81
• PDBsum: 3j81
• PubMed: 25417110
• UniProt: P38912|IF1A_YEAST Eukaryotic translation initiation factor 1A (Gene Name=TIF11)