Structure of PDB 7asp Chain C Binding Site BS01

Receptor Information

>7asp Chain C (length=274) Species: 1280 (Staphylococcus aureus)

AIKKYKPITNGRRNMTSLDFAEITKTTPEKSLLKPLPKKAGRNNQGKLTV
RHHGGGHKRQYRVIDFKRNKDGINAKVDSIQYDPNRSANIALVVYADGEK
RYIIAPKGLEVGQIVESGAEADIKVGNALPLQNIPVGTVVHNIELKPGKG
GQIARSAGASAQVLGKEGKYVLIRLRSGEVRMILSTCRATIGQVGNLQHE
LVNVGKAGRSRWKGIRPTVRGSVMNPNDHPHGGGEGRAPIGRPSPMSPWG
KPTLGKKTRRGKKSSDKLIVRGRK

Ligand information

>7asp Chain Y (length=2723)

uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccaauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauauguuagcauaucagaaggcacacccggagaacugaaacaucuuagu
acccggaggaagagaaagaaaauucgauucccuuaguagcggcgagcgaa
acgggaagagcccaaaccaacaaguugcuuguugggguuguaggacacuc
uaugaguuacaaaggacgacauuagacgaaucaucuggaaagaugaauca
aagaagguaauaauccuguagucgaaaauguugucucucuugaguggauc
cugaguacgacggagcacgugaaauuccgucggaaucugggaggaccauc
uccuaaggcuaaauacucucuagugaccgauagugaaccaguaccgugag
ggaaaggugaaaagcaccccggaaggggagugaaauagaaccugaaaccg
ugugcuuacaaguagucagagcccguuaaugggugauggcgugccuuuug
uagaaugaaccggcgaguuacgauuugaugcaagguuaagcaguaaaugu
ggagccguagcgaaagcgagucugaauagggcguuuaguauuuggucgua
gacccgaaaccaggugaucuacccuuggucagguugaaguucagugaaug
gaggaccgaaccgacuuacguugaaaagugagcggaugaacugaggguag
cggagaaauuccaaucgaaccuggagauagcugguucucuccgaaauagc
uuuagggcuagccucaagugaugauuauuggagguagagcacuguuugga
cgaggccgaauucagacaaacuccgaaugccaauuaauuuaacuugggag
ucagaacaugggugauaagguccguguucgaaagggaaacagcccagacc
accagcuaaggucccaaaauauauguuaaguggaaaaggauguggcguug
cccagacaacuaguagucgagugacacugcgccgaaaauguaccggggcu
aaacauauuaccgaagcugugauuguccuuuggacaaugguaggagagcg
uucuaagggcguugaagcaugaucguaaggacauguggagcgcuuagaag
ugagaaugccggugugaguagcgaaagacgggugagaaucccguccaccg
auugacuaagguuuccagaggaaggcucguccgcucuggguuagucgggu
ccuaagcugaggccgacaggcguaggcgauggauaacagguugauauucc
uguaccaccuauaaucgaucgauggggggacgcaguaggauaggcgaagc
gugcgauuggauugcacgucuaagcaguaaggcugaguaggcugagcugu
gauggggagaagacucuucgagucguugauuucacacugccgagaaaagc
cucuagauagaaaauaggugcccguaccgcaaaccgacacagguagucaa
gaugagaauucuaaggugagcgagcgaacucucguuaaggaacucggcaa
aaugaccccguaacuucgggagaaggggugcucuuuaggguuaacgccca
gaagagccgcagugaauaggcccaagcgacuguuuaucaaaaacacaggu
cucugcuaaaccguaaggugauguauaggggcugacgccugcccggugcu
ggaagguuaagaggagugguuagcuucugcgaagcuacgaaucgaagccc
caguaaacggcggccguaacuauaacgguccuaagguagcgaaauuccuu
gucggguaaguuccgacccgcacgaaaggcguaacgauuugggcacuguc
ucaacgagagacucggugaaaucauaguaccugugaagaugcagguuacc
cgcgacaggacggaaagaccccguggagcuuuacuguagccugauauuga
aauucggcacagcuagcuguguuggcuuucuaacccgcaccacuuaucgu
ggugggagacagugucaagcgggcaguuugacuggggcggucgccuccua
aaagguaacggaggcgcucaaagguucccuagaaugguuggaaaucauuc
auagaguguaaaggcauaagggagcuugacugcgagaccuacaagucgag
cagggucgaaagacggacuuagugauccggugguuccgcauggaagggcc
aucgcucaacggauaaaagcuaccccggggauaacaggcuuaucuccccc
aagaguucacaucgacggggagguuuggcaccucgaugucggcucaucgc
auccuggggcuguagucggucccaaggguugggcuguucgcccauuaaag
cgguacgcgagcuggguucagaacgucgugagacaguucggucccuaucc
gucgugggcguaggaaauuugagaggagcuguccuuaguacgggaccggg
auggacauaccucugguguaccaguugucgugccaacggcauagcugggu
agcuauguguggacgggauaagugcugaaagcaucuaagcaugaagcccc
ccucaagaugagauuucccaacuucgguuauaagaucccucaaagaugau
gagguuaauagguucgagguggaagcauggugacauguggagcugacgaa
uacuaaucgaucgaagacuuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7asp Staphylococcus aureus 50S after 30 minutes incubation a 37C
• Resolution: 2.86 Å
• Binding residue (original residue number in PDB): Y6 K7 P8 I9 T10 N11 R13 R14 S18 F21 K31 P38 K39 G42 R43 N44 N45 Q46 K48 L49 T50 R52 H53 G56 H58 K59 Q61 Y62 R63 Y83 R87 A97 K147 G149 K150 Q153 I154 A155 R156 S157 A158 L176 R177 S178 E180 R182 L198 E201 V205 G206 A208 G209 R212 W213 R217 P218 V220 R221 G222 S223 M225 N228 D229 G234 G235 E236 R238 P240 G242 R243 P246 P249 W250 T254 L255 G256 K257 K258 T259 R260 R274
• Binding residue (residue number reindexed from 1): Y5 K6 P7 I8 T9 N10 R12 R13 S17 F20 K30 P37 K38 G41 R42 N43 N44 Q45 K47 L48 T49 R51 H52 G55 H57 K58 Q60 Y61 R62 Y82 R86 A96 K146 G148 K149 Q152 I153 A154 R155 S156 A157 L175 R176 S177 E179 R181 L197 E200 V204 G205 A207 G208 R211 W212 R216 P217 V219 R220 G221 S222 M224 N227 D228 G233 G234 E235 R237 P239 G241 R242 P245 P248 W249 T253 L254 G255 K256 K257 T258 R259 R273

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0016740 transferase activity
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• 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:7asp, PDBe:7asp, PDBj:7asp
• PDBsum: 7asp
• UniProt: B3VKN3