Structure of PDB 4u67 Chain D Binding Site BS01

Receptor Information

>4u67 Chain D (length=177) Species: 243230 (Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539)

QLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDK
AAKELALITLQKPIITKAKKSISNFKLRQGMPVGIKVTLRGERMYVFLEK
LINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGM
DITIVTTAKTDEEARALLQSMGLPFRK

Ligand information

>4u67 Chain X (length=2667)

ggucaagauaguaaggguccacgguggaugcccuggcgcuggagccgaug
aaggacgcgauuaccugcgaaaagccccgacgagcuggagauacgcuuug
acucggggauguccgaauggggaaacccaccucguaagagguauccgcaa
ggaugggaacucagggaacugaaacaucucaguaccugaaggagaagaaa
gagaauucgauuccguuaguagcggcgagcgaacccggaucagcccaauc
aagccgaaguggcuggaaagcuacaccucagaaggugagaguccuguagg
cgaacgagaggucguuguucgugaaacgaugacugaauccgcgcggacca
ccgcgcaaggcuaaauacucccagugaccgauagcgcauaguaccgugag
ggaaaggugaaaagaaccccgggaggggagugaaagagaaccugaaaccg
uggacuuacaagcagucauggcaccuuaugcguguuauggcgugccuauu
gaagcaugagccggcgacuuagaccugacgugcgagcuuaaguugaaaaa
cggaggcggagcgaaagcgaguccgaauagggcggcauuaguacgucggg
cuagacucgaaaccaggugagcuaagcaugaccagguugaaacccccggg
gggcggaggaccgaaccggugccugcugaaacagucucggaugaguugug
uuuaggagugaaaagcuaaccgaaccuggagauagcuaguucuccccgaa
auguauugagguacagccucggauguugaccauguccuguagagcacuca
caaggcuaaaaccuuaugaaacuccgaaggggcacgcguuuaguccggga
gugaggcugcgagagcuaacuuccguagccgagagggaaacaacccagac
caucagcuaaggucccuaaaugaucgcucagugguuaaggaugugucguc
gcauagacagccaggagguuggcuuagaagcagccaccaagagugcguaa
uagcucacuggucgagugacgaugcgccgaaaaugaucggggcucaagug
aucuaccgaagcuauggauucaacucgccgaguugucugguaggggagcg
uucaguccgcggagaagccauaccggaaggagugguggagccgacugaag
ugcggaugccggcaugaguaacgauaaaagaagugagaaucuucuucgcc
guaaggacaaggguuccuggggaagggucguccgcccagggaaagucggg
accuaaggugaggccgaacggcgcagccgauggacagcaggucaagauuc
cugcaccgaucauguggagugauggagggacgcauuacgcuauccaaugc
caagcuauggcuaugcugguugguacgcucaagggcgaucgggucagaaa
aucuaccggucacaugccucagacguaucgggagcuuccucggaagcgaa
guuggaaacgcgacggugccaagaaaagcuucuaaacguugaaacaugau
ugcccguaccgcaaaccgacacagguguccgagugucaaugcacuaaggc
gcgcgagagaacccucguuaaggaacuuugcaaucucaccccguaacuuc
ggaagaagggguccccacgcuucgcguggggcgcagugaauaggcccagg
cgacuguuuaccaaaaucacagcacucugccaacacgaacaguggacgua
uagggugugacgccugcccggugccggaaggucaaguggagcggugcaag
cugcgaaaugaagccccggugaacggcuaagguagcgaaauuccuugucg
gguaaguuccgaccugcacgaaaggcguaacgaucugggcgcugucucaa
cgagggacucggugaaauugaauuggcuguaaagaugcggccuacccgua
gcaggacgaaaagaccccguggagcuuuacuauagucuggcauugggauu
cggguuucuagaaacuuggauuucuaaccugaaaaaucacuuucggggac
cgugcuuggcggguaguuugacuggggcggucgccucccaaaauguaacg
gaggcgcccaaaggucaccucaagacgguuggaaaucgucuguagagcgc
aaagguagaagguggcuugacugcgagacugacacgucgagcagggagga
aacucgggcuuagugaaccggugguaccguguggaagggccaucgaucaa
cggauaaaaguuaccccggggauaacaggcugaucucccccgagagucca
uaucggcggggagguuuggcaccucgaugucggcucgucgcauccugggg
cugaagaaggucccaaggguugggcuguucgcccauuaaagcggcacgcg
agcuggguucagaacgucgugagacaguucggucucuauccgcuacgggc
gcaggagaauugaggggaguugcuccuaguacgagaggaccggagugaac
ggaccgcuggucucccugcugucguaccaacggcacaugcaggguagcua
uguccggaacggauaaccgcugaaagcaucuaagcgggaagccagcccca
agaugaguucucccacugcagguaagacucccggaagaccaccggguuaa
gaggccaggcgugcacgcauagcaauguguucagcggacuggugcucauc
agucgaggucuugacca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4u67 The Ribosomal Protein uL22 Modulates the Shape of the Protein Exit Tunnel.
• Resolution: 3.65 Å
• Binding residue (original residue number in PDB): K33 V35 N37 G41 S42 K44 A70 K71 S75 F77 L79 K88 F122 R125 N127 N129 L130 G131 I132 K133 R150 G151 M152 D153 T155
• Binding residue (residue number reindexed from 1): K31 V33 N35 G39 S40 K42 A68 K69 S73 F75 L77 K86 F120 R123 N125 N127 L128 G129 I130 K131 R148 G149 M150 D151 T153

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:4u67, PDBe:4u67, PDBj:4u67
• PDBsum: 4u67
• PubMed: 28689968
• UniProt: Q9RXJ0|RL5_DEIRA Large ribosomal subunit protein uL5 (Gene Name=rplE)