Structure of PDB 6zu9 Chain q Binding Site BS01

Receptor Information

>6zu9 Chain q (length=636) Species: 559292 (Saccharomyces cerevisiae S288C)

KSAKEKLLDEMQDVYNKISQAENSWLTISNEFDLISRLLVRAQQQNWGTP
NIFIKVVAQVEDAVNNKAVARAYNTTKQRVKKVSRENEDSMAQEDFFTRL
QTIIDSRGKKTVNQQSLISTLEELLTVAEKPYEFIMAYLTLIPSRFDASA
NLSYQPIDQWKSSFNDISKLLSILDQTIDTYQVNEFADPIDFIEDEPKED
SDGVKRILGSIFSFVERLDDEFMKSLLNIDPHSSDYLIRLRDEQSIYNLI
LRTQLYFEATLKDEHDLERALTRPFVKRLDHIYYKSENLIKIMETAAWNI
IPAQFKSKFTSKDQLDSADYVDNLIDGLSTILSKQNNIAVQKRAILYNIY
YTALNKDFQTAKDMLLTSQVQTNINQFDSSLQILFNRVVVQLGLSAFKLC
LIEECHQILNDLLSSSHLREILGQQSLHRISLNSSNNASADERARQCLPY
HQHINLDLIDVVFLTCSLLIEIPRMTAFYSGIKVKRIPYSPKSIRRSLEH
YDKLSFQGPPETLRDYVLFAAKSMQKGNWRDSVKYLREIKSWALLPNMET
VLNSLTERVQVESLKTYFFSFKRFYSSFSVAKLAELFDLPENKVVEVLQS
VIAELEIPAKLNDEKTIFVVEKGDEITKLEEAMVKL

Ligand information

>6zu9 Chain 2 (length=1771)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacu
gugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaaga
gauguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuc
auaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaa
auuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuu
caacggguaacggggaauaaggguucgauuccggagagggagccugagaa
acggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccu
aauucagggagguagugacaauaaauaacgauacagggcccauucggguc
uuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauugga
gggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguau
auuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguu
ggccggucggauuuccaacggggccuuuccuucuggcuaaccuugagcuu
ggcgaaccaggacuuuuacuuugaaaaaauuagaguguucaaagcaggcg
uauugcucgaauauauuagcauggaauaauagaauaggacguuugguucu
auuuuguugguuucuaggaccaucguaaugauuaauagggacggucgggg
gcaucaguauucaauugucagaggugaaauucuuggauuuauugaagacu
aacuacugcgaaagcauuugccaaggacguuuucauuaaucaagaacgaa
aguuaggggaucgaagaugaucagauaccgucguagucuuaaccauaaac
uaugccgacuagggaucgggugguguuuuuuuaaugacccacucggcacc
uuacgagaaaucaaagucuuuggguucuggggggaguauggucgcaaggc
ugaaacuuaaaggaauugacggaagggcaccaccaggaguggagccugcg
gcuuaauuugacucaacacggggaaacucaccagguccagacacaauaag
gauugacagauugagagcucuuucuugauuuugugggugguggugcaugg
ccguucuuaguugguggagugauuugucugcuuaauugcgauaacgaacg
agaccuuaaccuacuaaauaguggugcuagcauuugcugguuauccacuu
cuuagagggacuaucgguuucaagccgauggaaguuugaggcaauaacag
gucugugaugcccuuagacguucugggccgcacgcgcgcuacacugacgg
agccagcgagucuaaccuuggccgagaggucuugguaaucuugugaaacu
ccgucgugcuggggauagagcauuguaauuauugcucuucaacgaggaau
uccuaguaagcgcaagucaucagcuugcguugauuacgucccugcccuuu
guacacaccgcccgucgcuaguaccgauugaauggcuuagugaggccuca
ggaucugcuuagagaagggggcaacuccaucucagagcggagaauuugga
caaacuuggucauuuagaggaacuaaaagucguaacaagguuuccguagg
ugaaccugcggaaggaucauu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6zu9 A structural inventory of native ribosomal ABCE1-43S pre-initiation complexes.
• Resolution: 6.2 Å
• Binding residue (original residue number in PDB): A115 K189 A190 V191 A192 R193 A194 N196 K267 T269 N309 L310 S311
• Binding residue (residue number reindexed from 1): A3 K67 A68 V69 A70 R71 A72 N74 K109 T111 N151 L152 S153

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003743 translation initiation factor activity
• GO:0005515 protein binding
• GO:0031369 translation initiation factor binding

Biological Process

• GO:0001732 formation of cytoplasmic translation initiation complex
• GO:0002183 cytoplasmic translational initiation
• GO:0006412 translation
• GO:0006413 translational initiation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005852 eukaryotic translation initiation factor 3 complex
• GO:0010494 cytoplasmic stress granule
• GO:0016282 eukaryotic 43S preinitiation complex
• GO:0033290 eukaryotic 48S preinitiation complex
• GO:0043614 multi-eIF complex

External links

• PDB: RCSB:6zu9, PDBe:6zu9, PDBj:6zu9
• PDBsum: 6zu9
• PubMed: 33289941
• UniProt: P32497|EIF3C_YEAST Eukaryotic translation initiation factor 3 subunit C (Gene Name=NIP1)