Structure of PDB 5juu Chain DC Binding Site BS02

Receptor Information

>5juu Chain DC (length=824) Species: 4932 (Saccharomyces cerevisiae)

VAFTVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAGI
TIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAA
LRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQ
VSKEDLYQTFARTVESVNVIVSTYADEVLGDVQVYPARGTVAFGSGLHGW
AFTIRQFATRYAKKFGVDKAKMMDRLWGDSFFNPKTKKWTNKDTDAEGKP
LERAFNMFILDPIFRLFTAIMNFKKDEIPVLLEKLEIVLKGDEKDLEGKA
LLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAEQLYEGPADDANCIA
IKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGTVKSGQKVRIQGPNY
VPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNIIGLVGIDQFLLKTGT
LTTSETAHNMKVMKFSVSPVVQVAVEVKNANDLPKLVEGLKRLSKSDPCV
LTYMSESGEHIVAGTGELHLEICLQDLEHDHAGVPLKISPPVVAYRETVE
SESSQTALSKSPNKHNRIYLKAEPIDEEVSLAIENGIINPRDDFKARARI
MADDYGWDVTDARKIWCFGPDGNGPNLVIDQTKAVQYLHEIKDSVVAAFQ
WATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQIIPTMRRATYAGFL
LADPKIQEPVFLVEIQCPEQAVGGIYSVLNKKRGQVVSEEQRPGTPLFTV
KAYLPVNESFGFTGELRQATGGQAFPQMVFDHWSTLGSDPLDPTSKAGEI
VLAARKRHGMKEEVPGWQEYYDKL

Ligand information

>5juu Chain B (length=3307)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugug
cgcauuucacugggccagcaucaguuuugguggcaggauaaauccauagg
aauguagcuugccucgguaaguauuauagccugugggaauacugccagcu
gggacugaggacugcgacguaagucaaggaugcuggcauaaugguuauau
gccgcccgucuugaaacacggaccaaggagucuaacgucuaugcgagugu
uuggguguaaaacccauacgcguaaugaaagugaacguagguuggggccu
cgcaagaggugcacaaucgaccgauccugaugucuucggauggauuugag
uaagagcauagcuguugggacccgaaagauggugaacuaugccugaauag
ggugaagccagaggaaacucugguggaggcucguagcgguucugacgugc
aaaucgaucgucgaauuuggguauaggggcgaaagacuaaucgaaccauc
uaguagcugguuccugccgaaguuucccucaggauagcagaagcucguau
caguuuuaugagguaaagcgaaugauuagagguuccggggucgaaaugac
cuugaccuauucucaaacuuuaaauauguaagaaguccuuguuacuuaau
ugaacguggacauuugaaugaagagcuuuuagugggccauuuuugguaag
cagaacuggcgaugcgggaugaaccgaacguagaguuaaggugccggaau
acacgcucaucagacaccacaaaagguguuaguucaucuagacagccgga
cgguggccauggaagucggaauccgcuaaggaguguguaacaacucaccg
gccgaaugaacuagcccugaaaauggauggcgcucaagcguguuaccuau
acucuaccgucaggguugauaugaugcccugacgaguaggcaggcgugga
ggucagugacgaagccuagaccguaaggucgggucgaacggccucuagug
cagaucuuggugguaguagcaaauauucaaaugagaacuuugaagacuga
aguggggaaagguuccacgucaacagcaguuggacguggguuagucgauc
cuaagagauggggaagcuccguuucaaaggccugauuuuaugcaggccac
caucgaaagggaauccgguuaagauuccggaaccuggauauggauucuuc
acgguaacguaacugaauguggagacgucggcgcgagcccugggaggagu
uaucuuuucuucuuaacagcuuaucaccccggaauugguuuauccggaga
uggggucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgc
uugugacggcccgugaaaauccacaggaaggaauaguuuucaugccaggu
cguacugauaaccgcagcaggucuccaaggugaacagccucuaguugaua
gaauaauguagauaagggaagucggcaaaauagauccguaacuucgggau
aaggauuggcucuaagggucggguagugagggccuuggucagacgcagcg
ggccuuguuguagacggccuugguaggucucuuguagaccgucgcuugcu
acaacgaucaacuuagaacugguacggacaaggggaaucugacugucuaa
uuaaaacauagcauugcgauggucagaaagugauguugacgcaaugugau
uucugcccagugcucugaaugucaaagugaagaaauucaaccaagcgcgg
guaaacggcgggaguaacuaugacucucuuaagguagccaaaugccucgu
caucuaauuagugacgcgcaugaauggauuaacgagauucccacuguccc
uaucuacuaucuagcgaaaccacagccaagggaacgggcuuggcagaauc
agcggggaaagaagacccuguugagcuugacucuaguuugacauugugaa
gagacauagaggguguagaauaagugggagcuucggcgccagugaaauac
cacuaccuuuauaguuucuuuacuuauucaaugaagcggagcuggaauuc
auuuuccacguucuagcauucaaggucccauucggggcugauccggguug
aagacauugucagguggggaguuuggcuggggcggcacaucuguuaaacg
auaacgcagauguccuaaggggggcucauggagaacagaaaucuccagua
gaacaaaaggguaaaagcccccuugauuuugauuuucagugugaauacaa
accaugaaaguguggccuaucgauccuuuagucccucggaauuugaggcu
agaggugccagaaaaguuaccacagggauaacuggcuuguggcagucaag
cguucauagcgacauugcuuuuugauucuucgaugucggcucuuccuauc
auaccgaagcagaauucgguaagcguuggauuguucacccacuaauaggg
aacgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacu
gaugaauguuaccgcaauaguaauugaacuuaguacgagaggaacaguuc
auucggauaauugguuuuugcggcugucugaucaggcauugccgcgaagc
uaccauccgcuggauuauggcugaacgccucuaagucagaauccaugcua
gaacgcggugauuucuuugcuccacacaauauagauggauacgaauaagg
cguccuuguggcgucgcugaaccauagcaggcuagcaacggugcacuugg
cggaaaggccuugggugcuugcuggcgaauugcaaugucauuuugcgugg
ggauaaaucauuuguauacgacuuagauguacaacgggguauuguaagca
guagaguagccuuguuguuacgaucugcugagauuaagccuuuguugucu
gauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5juu Ensemble cryo-EM uncovers inchworm-like translocation of a viral IRES through the ribosome.
• Resolution: 4.0 Å
• Binding residue (original residue number in PDB): V28 V137 R162 G703 P707 R710 G741 Y744 Q753 V754 R785 Q786 G789 G790
• Binding residue (residue number reindexed from 1): V27 V119 R144 G685 P689 R692 G723 Y726 Q735 V736 R767 Q768 G771 G772

Enzymatic activity

• Enzyme Commision number: 3.6.5.-

Gene Ontology

Molecular Function

• GO:0003746 translation elongation factor activity
• GO:0003924 GTPase activity
• GO:0005515 protein binding
• GO:0005525 GTP binding
• GO:0016787 hydrolase activity
• GO:0019843 rRNA binding
• GO:0042802 identical protein binding
• GO:0043022 ribosome binding
• GO:0051087 protein-folding chaperone binding

Biological Process

• GO:0006412 translation
• GO:0006414 translational elongation
• GO:0045901 positive regulation of translational elongation
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5juu, PDBe:5juu, PDBj:5juu
• PDBsum: 5juu
• PubMed: 27159452
• UniProt: P32324|EF2_YEAST Elongation factor 2 (Gene Name=EFT1)