Structure of PDB 5it7 Chain ii Binding Site BS01

Receptor Information

>5it7 Chain ii (length=98) Species: 28985 (Kluyveromyces lactis)

VKSGIAVGLNKGKKVNQLTPAPKISYRKGAASQRTTFVRSIVKEVASLAP
YERRLIELIRNAGEKRARKVAKKRLGTFGRAKAKVEEMNEIITASRRH

Ligand information

>5it7 Chain 5 (length=3270)

uugaccucaaaucagguaggaauacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucuggcgucuucgacguccgaguuguaau
uugaagaaggcaacuuuguagcugguccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggaucccaguuauuugu
aaagugcuuucgacgagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugggccagcauc
aguuuuagcgguuggauaaauccucgggaauguggcucugcuucgguaga
guguuauagcccgugggaauacagccagcugggacugaggauugcgacuu
uugucaaggaugcuggcguaaugguuaaaugccgcccgucuugaaacacg
gaccaaggagucuaacgucuaugcgaguguuuggguguaaaacccguacg
cguaaugaaagugaacguaggugagggcccgcaagggugcaucaucgacc
gauccugaugucuucggauggauuugaguaagagcauagcuguugggacc
cgaaagauggugaacuaugccugaauagggugaagccagaggaaacucug
guggaggcucguagcgguucugacgugcaaaucgaucgucgaauuugggu
auaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaag
uuucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaa
ugauuagagguaccgggguugaaaugaccuugaccuauucucaaacuuua
aauauguaagaaguccuuguugcuuaauugaacguggacauuugaaugaa
gagcuuuuagugggccauuuuugguaagcagaacuggcgaugcgggauga
accgaacguggaguuaaggugccggaauacacgcucaucagacaccacaa
aagguguuaguucaucuagacagccggacgguggccauggaagucggaau
ccgcuaaggaguguguaacaacucaccggccgaaugaacuagcccugaaa
auggauggcgcucaagcguguuaccuauacuccaccgucaggguuaauau
gaugcccugacgaguaggcaggcguggaggucagugacgaagccuaggcu
guaaagcuggguagaacggccucuagugcagaucuuggugguaguagcaa
auauucaaaugagaacuuugaagacugaaguggggaaagguuccacguca
acagcaguuggacguggguuagucgauccuaagagauggggaagcuccgu
uucaaaggccuaauuuucuaggccaccaucgaaagggaauccgguuaaua
uuccggaaccuggauauggauucuucacgguaacguaacugaauguggag
acgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuau
caccccggaauugguuuauccggagagggggucuuauggcuggaagagcc
cagcccuugugcuggguccggugcgcccgcgacggcccuugaaaauccac
aggaaggaauaguuuucaugccaggucguacugauaaccgcagcaggucu
ccaaggugaacagccucuaguugauagaauaauguagauaagggaagucg
gcaaaauagauccguaacuucgggauaaggauuggcucuaaggaucgggc
gugagggccuuggucagacgcggcguuguagacggccuugguaggucucu
uguagaugcugcaauuaacgaucaacuuagaacugguacggacaagggga
aucugacugucuaauuaaaacauagcauugcgauggucagaaagugaugu
ugacgcaaugugauuucugcccagugcucugaaugucaaagugaagaaau
ucaaccaagcgcggguaaacggcgggaguaacuaugacucucuuaaggua
gccaaaugccucgucaucuaauuagugacgcgcaugaauggauuaacgag
auucccacugucccuaucuacuaucuagcgaaaccacagccaagggaacg
ggcuuggcagaaucagcggggaaagaagacccuguugagcuugacucuag
uuugacauugugaagagacauagaggguguagcauaagugggagcuucgg
cgccagugaaauaccacuaccuuuauaguuucuuuacuuauucaauuaag
cggagcuggaauucauuuuccacguucuagcauucaaaguccuauacggg
cugauccggguugaagacauugucagguggggaguuuggcuggggcggca
caucuguuaaacgauaacgcagauguccuaagggggacucauggagaaca
gaaaucuccaguagaacaaaaggguaaaaguccccuugauuuugauuuuc
agugugaauacaaaccaugaaaguguggccuaucgauccuuuagguccuc
ggaauuugaggcuagaggugccagaaaaguuaccacagggauaacuggcu
uguggcagucaagcguucauagcgacauugcuuuuugauucuucgauguc
ggcucuuccuaucauaccgaagcagaauucgguaagcguuggauuguuca
cccacuaauagggaacgugagcuggguuuagaccgucgugagacagguua
guuuuacccuacugaugaauguuaucgcaauaguaauugaacuuaguacg
agaggaacaguucauucggauaauugguuuuugcggcugucugaucaggc
auugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaaguc
agaauccaugcuagaacgcgaugauuucuuugccuugcacaauauagaag
gauaagaauaaggcgucuuuuuggcgucgcugaaccauagcaggcuggca
acggugcucuuagcggaaaggcuuugggugcuugccggcgaauugcaaug
ucauuuugcgcaaggauaaaucauuuguauacgacuuaaauguacaacag
gguauuguaagcaguagaguagccuuguuguuacgaucugcugagauuaa
gccuucguugucugauuugu

........................<<<<<<.....<......>......>
>>>>.>...<.....<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<........<<.<<<<<<...>>>>>>.>>........
>....<<<<<<<.<<<<.<<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>.....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>....>..........................
...<<....>>...............<<<<....>>>>............
......................<<<<<<<<<<<<.......<<<<<<<.<
<<<<<<<<<<<<<<.....<<<<.<<<<......<<<<<<<....>>>>>
>>.......>>>>.>>.>.>.>>>>>.>>>>>>>>>>........<<<..
..>>>.....>>>>>>>....>>>>>>>>>>>>..<<<<........>>>
><<<<<<....<<<<<<.<<<<<<..<<<..<<<<<.....>>>>>..>>
>...<<....>>.......<<<<<..<<<<....>>>>...>>>>>.<<<
<<<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<
.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>
>>.....>>>...<<<<.<<.<<........>>>>>>>>....>>>>>>>
>>...<<.......>>......>>>>>>...>..>.>>..<<<<<<....
<.<<<....>>>.><<<<<<<<<<...<<<.<<.<<<<.....<<<....
<<<..<.<<<<..<<<<<<<.....>>>>>>>>>>>.>..>>>..>.>>.
....>>>>>...<<<<.<<<<.<......>>>>>.>>>>......>>>>.
>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<.....
.>>>...<<<<<<<..<<<<(((.....<<<<<<......<.........
.<<<.<<<<<<<<<<.......<<<<<.<<<...<<.........>>...
>>>.........<<......>>...>>>>>...>>>>>>>>>>>>>....
......))).>....>>>>>>.>>>>..>>>>>>><<<<<<<<<......
...>>>>>>>>>....>>>>>>..<<<<<<<..<<......<<<<.<<<<
....>>>>>>>>...>>.>>>>>>>........>>>>>><<.....<<..
...<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<..
.<<.....>>.>>>>>>....((<<<<<<...<<....<<<....>>>..
......<<<<<<......>>>>>>....>>....>>...<<<<<......
..>>>>>))<<<<.<<<<<<<...<.<<<....>>>.......<<<<<<.
..<<<<.<<<<.<<<<<<<<<<<<<..[[[..>>>>>><...<<<<<...
.<<<<<.....<<<.....>>>.....>>>>>.....>>>>>....><<<
<<<<......>>>>>>>>>>>.>.>>.>>>>.>>>>.........>>>>>
>.....>....>>>..>>>>>>>>>>>>..>>.....<<......>>>>>
>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.......
........<<<<<...............>>>>><<.<<<<<<<<<<....
......<<<..<<<<....<<<<..>>>>....>>>>..>>>........
...................>>>>..>>>>>>.>>............<<<<
<<<<<..<<<.........>>>..<<<<<<<....<<<<.....>>>>..
....>>>>>>>.<.<<..<<<..<<<<<<....<<<....<<<<<....>
>>>.>...>>>.>>>>..>>>>>.<<<<<.......>>>>>.........
<...........<<<<<.......>>>>>.....>.....>>.>..>>.>
>>>>>>.....>>.>>>>>>>..>>>>>>....>>....<<<<<......
..>>>>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<
<<<<<<<....<<<<.<.....<<<<..........<<<<<..<<....>
>............>>>>>.>>>>.....>>>.>>......<<<<<.....
<<<<....<<<......>>>.................<<<<<.....>>>
>>..>>>>..>>>>>.....>>>>>>>>..>>>>>...<<<.....>>>.
.<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<...
....>>>>>>.....<<[..(((>>....>>>>>>>...<<<.<<<<<..
.....>>>>.>>>>.<<<....>>>.>>))).]....<<<<<<<..<<<<
.))))))>>>>>>>>>>>.........>>>>..>>>>>>.......<<.<
...<<<<<<...<<.......>>...>>>>>>....>.>.>.......<<
<<<..<<<<<..<.<<<<<<<......>>>>>>>...>.<<<........
.>>>.....>>>>>......>>>.>>....<<<<<<<....>>>.>>>>.
...>>..>>>.>>>>>....<<<<<<<<..<<<<...<<<<<<.......
........>>>>>>..<<<<<...<<<<....<<<<<<<<<<]]].>>>>
>..>>>>>...>>>>..>>>>>.<<<<...<<<<<...........>>>>
>...>>>>.>>>>....>>>>>>>>.......<<<<<<.<<<.<<....<
<..........<<<<<<.....>>>>>>......>>.......<<<<<<.
..<<<<<<<..<<<......>>>..>>>>>>>.>>>>>>...........
..>>.>>>.>>>>>>..<<<<<.<.............>.....<<<<<<<
<<.<<<....<<<<.<..<<<<<......>>>>>..>>>>>...>>>...
.>>>>.>>>>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5it7 Structural characterization of ribosome recruitment and translocation by type IV IRES.
• Resolution: 3.6 Å
• Binding residue (original residue number in PDB): K13 K15 V17 K25 I26 S27 Y28 R29 K30 G31 A32 A33 S34 Q35 T37 R41 Y53 E59 R62 R68 K74 K75 R76 G78 F80 R82 K86 R98 R99
• Binding residue (residue number reindexed from 1): K11 K13 V15 K23 I24 S25 Y26 R27 K28 G29 A30 A31 S32 Q33 T35 R39 Y51 E57 R60 R66 K72 K73 R74 G76 F78 R80 K84 R96 R97

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5it7, PDBe:5it7, PDBj:5it7
• PDBsum: 5it7
• PubMed: 27159451
• UniProt: Q6CR18