Structure of PDB 4wzo Chain J8 Binding Site BS02

Receptor Information

>4wzo Chain J8 (length=97) Species: 300852 (Thermus thermophilus HB8)

SKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRV
RVAGQEITFRVAASHIPKVYELVERAKGLKLEGLSPKEIKKELLKLL

Ligand information

>4wzo Chain 1H (length=2902)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uuuuugcgcggggggaaccuggggaacugaaacaucucaguacccagagg
agaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggacca
gccuaaaccguccggcuuguccgggcggggucguggggcccucggacacc
gaauccccagccuagccgaagcuguugggaagcagcgccagagaggguga
aagccccguaggcgaaagguggggggauaggugaggguacccgaguaccc
cgugguucguggagccaugggggaaucugggcggaccaccgccuaaggcu
aaguacuccgggugaccgauagcgcaccaguaccgugagggaaaggugaa
aagaaccccgggaggggagugaaauagagccugaaaccgugggcuuacaa
gcagucacggccccgcaagggguuguggcgugccuauugaagcaugagcc
ggcgacucacggucgugggcgagcuuaagccguugaggcggaggcguagg
gaaaccgaguccgaacagggcgcaaacggcccgcacgcgggccgaaaagu
ccgcggccguggacccgaaaccgggcgagcuagcccuggccagggugaag
cuggggugagacccaguggaggcccgaaccggugggggaugcaaaccccu
cggaugagcuggggcuaggagugaaaagcuaaccgagcccggagauagcu
gguucuccccgaaaugacuuuagggucagccucaggcgcugacuggggcc
uguagagcacugauagggcuagggggcccaccagccuaccaaacccuguc
aaacuccgaagggucccagguggagccugggagugagggcgcgagcgaua
acguccgcguccgagcgcgggaacaaccgagaccgccagcuaaggccccc
aagucugggcuaagugguaaaggauguggcgccgcgaagacagccaggau
guuggcuuagaagcagccaucauuuaaagagugcguaauagcucacuggu
cgaguggcgccgcgccgaaaaugaucggggcuuaagcccagcgccgaagc
ugcgggucugggggaugaccccaggcgguaggggagcguucccgaugccg
augaaggccgacccgcgagggcggcuggagguaagggaagugcgaaugcc
ggcaugaguaacgauaaagagggugagaaucccucucgccguaagcccaa
ggguuccuacgcaauggucgucagcguaggguuaggcgggaccuaaggug
aagccgaaaggcguagccgaagggcagccgguuaauauuccggcccuucc
cgcaggugcgauggggggacgcucuaggcuagggggaccggagccaugga
cgagcccggccagaagcgcagggugggagguaggcaaauccgccucccaa
caagcucugcgugguggggaagcccguacgggugacaaccccccgaagcc
agggagccaagaaaagccucuaagcacaaccugcgggaacccguaccgca
aaccgacacaggugggcgggugcaagagcacucaggcgcgcgggagaacc
cucgccaaggaacucugcaaguuggccccguaacuucgggagaaggggug
cucccuggggugaugagccccggggagccgcagugaacaggcucuggcga
cuguuuaccaaaaacacagcucucugcgaacucguaagaggagguauagg
gagcgacgcuugcccggugccggaaggucaaggggaggggugcaagcccc
gaaccgaagccccggugaacggcggccguaacuauaacgguccuaaggua
gcgaaauuccuugucggguaaguuccgaccugcacgaaaagcguaacgac
cggagcgcugucucggcgagggacccggugaaauugaacuggccgugaag
augcggccuacccguggcaggacgaaaagaccccguggagcuuuacugca
gccugguguuggcucuuggucgcgccugcguaggauaggugggagccugu
gaacccccgccuccgggugggggggaggcgccggugaaauaccacccugg
cgcggcugggggccuaacccucggauggggggacagcgcuuggcgggcag
uuugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagguc
cccucaggcgggacggaaauccgccggagagcgcaaggguagaagggggc
cugacugcgaggccugcaagccgagcaggggcgaaagccgggccuaguga
accgguggucccguguggaagggccaucgaucaacggauaaaaguuaccc
cggggauaacaggcugaucucccccgagcguccacagcggcggggagguu
uggcaccucgaugucggcucgucgcauccuggggcugaagaaggucccaa
ggguugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacg
ucgugagacaguucggucucuauccgccacgggcgcaggaggcuugaggg
gggcucuuccuaguacgagaggaccggaagggacgcaccucugguuuccc
agcugucccuccaggggcauaagcuggguagccaugugcggaagggauaa
ccgcugaaagcaucuaagcgggaagcccgccccaagaugaggccucccac
ggcgucaagccgguaaggacccgggaagaccacccgguggaugggccggg
gguguaagcgccgcgaggcguugagccgaccggucccaaucguccgaggu
cu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4wzo Structural insights into the translational infidelity mechanism.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): S2 K3 K10 I13 V14 A15 N16 I18 Q19 R20 R21 K25 R26 G28 G29 V30 K32 K33 T34 T35 I37 K39 R40 R41 Q42 Y43 P44 N45 Q47 R50 R52 R61 K69 K78 K88 E93 L98
• Binding residue (residue number reindexed from 1): S1 K2 K9 I12 V13 A14 N15 I17 Q18 R19 R20 K24 R25 G27 G28 V29 K31 K32 T33 T34 I36 K38 R39 R40 Q41 Y42 P43 N44 Q46 R49 R51 R60 K68 K77 K87 E92 L97

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4wzo, PDBe:4wzo, PDBj:4wzo
• PDBsum: 4wzo
• PubMed: 26037619
• UniProt: P60494|RL28_THET8 Large ribosomal subunit protein bL28 (Gene Name=rpmB)