Structure of PDB 4v8x Chain DO Binding Site BS02

Receptor Information
>4v8x Chain DO (length=122) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MIQPQTYLEVADNTGARKIMCIRVLKGSNAKYATVGDVIVASVKEAIPRG
AVKEGDVVKAVVVRTKKEIKRPDGSAIRFDDNAAVIINNQLEPRGTRVFG
PVARELREKGFMKIVSLAPEVL
Ligand information
>4v8x Chain DA (length=2848) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uuuugcgcggggggaaccuggggaacugaaacaucucaguacccagagga
gaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccag
ccuaaaccguccggcuuguccgggcggggucgggggcccucggacaccga
auccccagccuagccgaagcuguugggaagcagcgccagagagggugaaa
gccccguaggcgaaagguggggggauaggugaggguacccgaguaccccg
ugguucguggagccaugggggaaucugggcggaccaccgccuaaggcuaa
guacuccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaa
gaaccccgggaggggagugaaauagagccugaaaccgugggcuuacaagc
agucacggccccgcaagggguuguggcgugccuauugaagcaugagccgg
cgacucacggucgugggcgagcuuaagccguugaggcggaggcguaggga
aaccgaguccgaacagggcgcaagcgggccgcacgcggcccgcaaagucc
gcggccguggacccgaaaccgggcgagcuagcccuggccagggugaagcu
ggggugagacccaguggaggcccgaaccggugggggaugcaaaccccucg
gaugagcuggggcuaggagugaaaagcuaaccgagcccggagauagcugg
uucuccccgaaaugacuuuagggucagccucaggcgcugacuggggccug
uagagcacugauagggcuagggggcccaccagccuaccaaacccugucaa
acuccgaagggucccagguggagccugggagugagggcgcgagcgauaac
guccgcguccgagcgcgggaacaaccgagaccgccagcuaaggcccccaa
gucugggcuaagugguaaaggauguggcgccgcgaagacagccagucgag
uggcgccgcgccgaaaaugaucggggcuuaagcccagcgccgaagcugcg
ggucugggggaugaccccaggcgguaggggagcguucccgaugccgauga
aggccgacccgcgagggcggcuggagguaagggaagugcgaaugccggca
ugaguaacgauaaagagggugagaaucccucucgccguaagcccaagggu
uccuacgcaauggucgucagcguaggguuaggcgggaccuaaggugaagc
cgaaaggcguagccgaagggcagccgguuaauauuccggcccuucccgca
ggugcgauggggggacgcucuaggcuagggggaccggagccauggacgag
cccggccagaagcgcagggugggagguaggcaaauccgccucccaacaag
cucugcgugguggggaagcccguacgggugacaaccccccgaagccaggg
agccaagaaaagccucuaagcacaaccugcgggaacccguaccgcaaacc
gacacaggugggcgggugcaagagcacucaggcgcgcgggagaacccucg
ccaaggaacucugcaaguuggccccguaacuucgggagaaggggugcucc
cuggggugaugagccccggggagccgcagugaacaggcucuggcgacugu
uuaccaaaaacacagcucucugcgaacucguaagaggagguauagggagc
gacgcuugcccggugccggaaggucaaggggaggggugcaagccccgaac
cgaagccccggugaacggcggccguaacuauaacgguccuaagguagcga
aauuccuugucggguaaguuccgaccugcacgaaaagcguaacgaccgga
gcgcugucucggcgagggacccggugaaauugaacuggccgugaagaugc
ggccuacccguggcaggacgaaaagaccccguggagcuuuacugcagccu
gguguuggcucuuggucgcgccugcguaggauaggugggagccugugaac
ccccgccuccgggugggggggaggcgccggugaaauaccacccuggcgcg
gcugggggccuaacccucggauggggggacagcgcuuggcgggcaguuug
acuggggcggucgccuccuaaaagguaacggaggcgcccaaagguccccu
caggcgggacggaaauccgccggagagcgcaaggguagaagggggccuga
cugcgaggccugcaagccgagcaggggcgaaagccgggccuagugaaccg
guggucccguguggaagggccaucgaucaacggauaaaaguuaccccggg
gauaacaggcugaucucccccgagcguccacagcggcggggagguuuggc
accucgaugucggcucgucgcauccuggggcugaagaaggucccaagggu
ugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacgucgu
gagacaguucggucucuauccgccacgggcgcaggaggcuugaggggggc
ucuuccuaguacgagaggaccggaagggacgcaccucugguuucccagcu
gucccuccaggggcauaagcuggguagccaugugcggaagggauaaccgc
ugaaagcaucuaagcgggaagcccgccccaagaugaggccucccacggcg
ucaagccgguaaggacccgggaagaccacccgguggaugggccgggggug
uaagcgccgcgaggcguugagccgaccggucccaaucguccgaggucu
<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<......<<<
<<<.((..((.>>>.....<<<<<<<..<<<))..)).>>>.....>>>>
>>>...>>>....<<<....>>><<<<<<<<....>>>>>>>>.<<<<<<
....>>>>>>.>>....<<<<<.....<<....>>......>>>>>....
.......<<....>>...<<<<<.....<<.....>>....>>>>>...<
<<....<<<<<<<<.....>>>>>>>>.....<<<<<<<<<....<<<..
.<<<<<.<<<<.<<<...<<<<<......>>>>>((......<<<.....
))>>>...>>>...>>>>..>>>>>..>>>>>>>>>.>>>.....<<<<<
<<<<.......>>>>>>>>>......<<<<<..((((>>>>>..>>>...
...>>.>>>>>>.>>...............<<....>>....>>......
...<<<<....>>>>..................>>>>>>>>>>>......
.<<<<<<<<<<<....>>>>>>>>>>>...<............>.<<<<<
<....<<<<<<<<<<<<<..<<<...<<<.....>>>...>>>...<<..
..>>..<<<<.....>>>>....<..<<<<<....>>>>>>.....>>>>
>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<<<....<<<
<<<......>>>>>>.....>>>...<<<..<<<<........>>>>.>>
>....>>>>>>>>>...<<<.....>>>......>>>>>>......>.>>
..<<<<<<....<<<<<....>>>>><<<<<<<<<.....<<<<<<<<<.
..<<<...<<<<<<<<...<<<<<<......>>>>.>>...>>>>>>>>.
.>>.>...>>>>>>>>>.....>>>>>>>.>>..<<<<<<<.<<......
>>.>>>>>>>.....<<<......>>>...<<<<.<<<...<<<(((...
..<<<<<<...........<<..<<<<<<<<<........<....>....
>>>>>>>>>.>>..........)))......>>>>>>.>>>...>>>>>>
><<<<<<<<.....>>>>>>>>....>>>>>>..<<<<<...<<<.....
.<<<<<.<<<....>>>>>>>>...>>>..>>>>>........>>>>>><
......<<.....<<<<<<.......>>>>>><<<<....<<<<<.<<..
.<<<<<<...<<.....>>.>>>>>>....((<<<<.<<...<<<...<<
<....>>>...>>>...>>...<<<<<........>>>>>))<<<<<<<<
<<<<<...<<<<....<<<<<.<<<..<<<<<.<<<<.<<..[[[[...>
>>>>><<<...<<<<<<<<<<<<<<<<.<<.....>>>>>>>>>.....>
>>>>>>>>..>>><...<<<<....>>>>.....>>>>>>...>>>..>>
>>>.........>>>>...>>...>>>>>>>>>>>>>>>..>>.....<<
......>>>>>>>.<<<<<....>>>>>..>>>>..<<<<....<<<<<<
<<.<<.........<.....<<<<<....<....>.....>>>>><<<<<
<<<<<<<.....>>>>>>>>>>>>............<<<<<<<<<..<<<
.........>>>..<<<<<<<.....<<<....>>>.......>>>>>>>
.<<<<<.<<<..<<<<<<<..<<<...<<...<<<<<....>>>>>...>
>...>>>>>>>>..>>>>><<<<<<.......>>>>>>........<...
........<<<<<<.....>>>>>>.....>....>>>>>..>>.>>>>>
>>..>..>>.>>>>>>>>.>>>>>>.....>.....<<<<<........>
>>>>..<<<<<<<<.<<<.........<<<<.<<<<<<..<<<<<.<<<.
<<<<<.<<<<<<<<<<<<<<<<...........<<<<<..<<.......<
<<<<<<<....>>>>>>>>....>>............>>>>>..>>>>>>
>>>>>>>>>>...<<<<<....>>>>>....>>>>>.>>>..>>>>>..<
<<<.....>>>><<<<<<...........>>>>>>..<<...<<<<<<<.
..<<<<<<.......>>>>>>.....<....(((.>....>>>>>>>...
<<<<..<<<......>>>..>>>>.<<<....>>>.>>))).......<<
<<<<<.<<..))))..>>>>>>>>>.............>>>>..>>>>>>
.......<<<<...<<<<<<...<<.......>>...>>>>>>....>>>
.>.......<<<<<.<<<<<<..<<<<<<<<<......>>>>>>>..>>.
<<<<<.....>>>>>.....>>>>>..>...>>>.>>....<<<<<<<..
..>>>.>>>>........>>>>>>>>>>>....<<<<<<<...<<<<..<
<<<<<<...............>>>>>>>.<<<<<...<<<<...<<<<<<
<<<<<]]]]>>>>>>...>>>>>...>>>>.>>>>>...<<<....<<<<
<...........>>>>>....>>>.>>>>.......>>>>>>>...<...
......>.....<<<<<<<<<.......>>>>>....<<<<<<<<.<<<.
...<<<<<....>>>>>...>>>..>>>>>.>>>...>>>>....>>>
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v8x Yoeb-Ribosome Structure: A Canonical Rnase that Requires the Ribosome for its Specific Activity.
Resolution3.35 Å
Binding residue
(original residue number in PDB)		M1 Q3 Q5 T6 Y7 I22 R23 L25 K26 S28 N29 K31 Y32 V40 S42 K44 K66 K67 E68 K70
Binding residue
(residue number reindexed from 1)		M1 Q3 Q5 T6 Y7 I22 R23 L25 K26 S28 N29 K31 Y32 V40 S42 K44 K66 K67 E68 K70
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
GO:0070180 large ribosomal subunit rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015934 large ribosomal subunit
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4v8x, PDBe:4v8x, PDBj:4v8x
PDBsum4v8x
PubMed23945936
UniProtQ5SHP8|RL14_THET8 Large ribosomal subunit protein uL14 (Gene Name=rplN)

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