Structure of PDB 2zjq Chain I Binding Site BS01

Receptor Information

>2zjq Chain I (length=141) Species: 1299 (Deinococcus radiodurans)

HDLKPTPGSRKDRKRVGRGPGGTDKTAGRGHKGQKSRSGAGKGAFFEGGR
SRLIARLPKRGFNNVGTTYEVVKLSQLQDLEDTTFDRDTLEAYRLVRRKN
RPVKLLASGEISRAVTVHVDAASAAAIKAVEAAGGRVVLPE

Ligand information

>2zjq Chain X (length=2686)

ggucaagauaguaaggguccacgguggaugcccuggcgcuggagccgaug
aaggacgcgauuaccugcgaaaagccccgacgagcuggagauacgcuuug
acucggggauguccgaauggggaaacccaccucguaagagguauccgcaa
ggaugggaacucagggaacugaaacaucucaguaccugaaggagaagaaa
gagaauucgauuccguuaguagcggcgagcgaacccggaucagcccaauc
aagccgaaguggcuggaaagcuacaccucagaaggugagaguccuguagg
cgaacgagaggucguuguucgugaaacgaugacugaauccgcgcggacca
ccgcgcaaggcuaaauacucccagugaccgauagcgcauaguaccgugag
ggaaaggugaaaagaaccccgggaggggagugaaagagaaccugaaaccg
uggacuuacaagcagucauggcaccuuaugcguguuauggcgugccuauu
gaagcaugagccggcgacuuagaccugacgugcgagcuuaaguugaaaaa
cggaggcggagcgaaagcgaguccgaauagggcggcauuaguacgucggg
cuagacucgaaaccaggugagcuaagcaugaccagguugaaacccccgug
acagggggcggaggaccgaaccggugccugcugaaacagucucggaugag
uuguguuuaggagugaaaagcuaaccgaaccuggagauagcuaguucucc
ccgaaauguauugagguacagccucggauguugaccauguccuguagagc
acucacaaggcuaaaaccuuaugaaacuccgaaggggcacgcguuuaguc
cgggagugaggcugcgagagcuaacuuccguagccgagagggaaacaacc
cagaccaucagcuaaggucccuaaaugaucgcucagugguuaaggaugug
ucgucgcauagacagccaggagguuggcuuagaagcagccacccuucaaa
gagugcguaauagcucacuggucgagugacgaugcgccgaaaaugaucgg
ggcucaagugaucuaccgaagcuauggauucaacucgcgaagcgaguugu
cugguaggggagcguucaguccgcggagaagccauaccggaaggaguggu
ggagccgacugaagugcggaugccggcaugaguaacgauaaaagaaguga
gaaucuucuucgccguaaggacaaggguuccuggggaagggucguccgcc
cagggaaagucgggaccuaaggugaggccgaacggcgcagccgauggaca
gcaggucaagauuccugcaccgaucauguggagugauggagggacgcauu
acgcuauccaaugccaagcuauggcuaugcugguugguacgcucaagggc
gaucgggucagaaaaucuaccggucacaugccucagacguaucgggagcu
uccucggaagcgaaguuggaaacgcgacggugccaagaaaagcuucuaaa
cguugaaacaugauugcccguaccgcaaaccgacacagguguccgagugu
caaugcacuaaggcgcgcgagagaacccucguuaaggaacuuugcaaucu
caccccguaacuucggaagaagggguccccacgcuucgcguggggcgcag
ugaauaggcccaggcgacuguuuaccaaaaucacagcacucugccaacac
gaacaguggacguauagggugugacgccugcccggugccggaaggucaag
uggagcggugcaagcugcgaaaugaagccccggugaacggcuaagguagc
gaaauuccuugucggguaaguuccgaccugcacgaaaggcguaacgaucu
gggcgcugucucaacgagggacucggugaaauugaauuggcuguaaagau
gcggccuacccguagcaggacgaaaagaccccguggagcuuuacuauagu
cuggcauugggauucggguuucuagaaacuuggauuucuaaccugaaaaa
ucacuuucggggaccgugcuuggcggguaguuugacuggggcggucgccu
cccaaaauguaacggaggcgcccaaaggucaccucaagacgguuggaaau
cgucuguagagcgcaaagguagaagguggcuugacugcgagacugacacg
ucgagcagggaggaaacucgggcuuagugaaccggugguaccguguggaa
gggccaucgaucaacggauaaaaguuaccccggggauaacaggcugaucu
cccccgagaguccauaucggcggggagguuuggcaccucgaugucggcuc
gucgcauccuggggcugaagaaggucccaaggguugggcuguucgcccau
uaaagcggcacgcgagcuggguucagaacgucgugagacaguucggucuc
uauccgcuacgggcgcaggagaauugaggggaguugcuccuaguacgaga
ggaccggagugaacggaccgcuggucucccugcugucguaccaacggcac
augcaggguagcuauguccggaacggauaaccgcugaaagcaucuaagcg
ggaagccagccccaagaugaguucucccacuguuuaucagguaagacucc
cggaagaccaccggguuaagaggccaggcgugcacgcauagcaauguguu
cagcggacuggugcucaucagucgaggucuugacca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2zjq Translational regulation via L11: molecular switches on the ribosome turned on and off by thiostrepton and micrococcin.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): K7 P8 T9 R13 K17 R18 G20 R21 G22 P23 T26 G31 R32 H34 Q37 K38 S39 R40 S41 A43 G44 K45 F48 F49 E50 R53 L56 R59 L60 P61 R63 G64 F65 N66 N67 G69 V74 L98 R100 R101 K107 L109 A110 S126 A127
• Binding residue (residue number reindexed from 1): K4 P5 T6 R10 K14 R15 G17 R18 G19 P20 T23 G28 R29 H31 Q34 K35 S36 R37 S38 A40 G41 K42 F45 F46 E47 R50 L53 R56 L57 P58 R60 G61 F62 N63 N64 G66 V71 L95 R97 R98 K104 L106 A107 S123 A124

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 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

External links

• PDB: RCSB:2zjq, PDBe:2zjq, PDBj:2zjq
• PDBsum: 2zjq
• PubMed: 18406324
• UniProt: Q9RSK9|RL15_DEIRA Large ribosomal subunit protein uL15 (Gene Name=rplO)