Structure of PDB 4v9f Chain Z Binding Site BS01

Receptor Information

>4v9f Chain Z (length=83) Species: 272569 (Haloarcula marismortui ATCC 43049)

KTGSSGRFGARYGRVSRRRVAEIESEMNEDHACPNCGEDRVDRQGTGIWQ
CSYCDYKFTGGSYKPETPGGKTVRRSIRAALSE

Ligand information

>4v9f Chain 0 (length=2808)

acuaugccagcugguggauugcucggcucaggcgcugaugaaggacgugc
caagcugcgauaagcuguggggagccgcacggaggcgaagaaccacagau
uuccgaaugagaaucucucuaacaauugcuucgcgcaaugaggaaccccg
agaacugaaacaucucaguaucgggaggaacagaaaacgcaacgugaugu
cguuaguaaccgcgagugaacgcgauacagcccaaaccgaagcccucacg
ggcaauguggugucagggcuaccucucaucagccgaccgucuucacgaag
ucucuuggaauagagcgugauacagggugacaaccccguacugaagacca
guacgcugugcgguagugccagaguagcggggguuggauaucccucgcga
auaacgcaggcaucgacugcgaaggcuaaacacaaccugagaccgauagu
gaacaaguagugugaacgaacgcugcaaaguacccucagaagggaggcga
aauagagcaugaaaucaguuggcgaucgagcgacagggcauacaaggucc
cuugacgaaugaccgagacgcgagucuccaguaagacucacgggaagccg
auguucugucguacguuuugaaaaacgagccagggagugugucuguaugg
caagucuaaccggaguauccggggaggcacagggaaaccgacauggccgc
agggcuuugcccgagggccgccgucuucaagggcggggagccauguggac
acgacccgaauccggacgaucuacgcauggacaagaugaagcgugccgaa
aggcacguggaagucuguuagaguugguguccuacaauacccucucguga
ucuauguguaggggugaaaggcccaucgaguccggcaacagcugguucca
aucgaaacaugucgaagcaugaccuccgccgagguagucugugagguaga
gcgaccgauugguguccuccugucaaacuccaaacuuacagacgcuguuu
gacgcggggauuccggugcgcgggguaagccuguguaccaggaggggaac
aacccagagauagguuaagguccccaaguguggauuaaguguaauccucu
gaagguggucucgagcccuagacagccgggaggugagcuuagaagcagcu
acccucuaagaaaagcguaacagcuuaccggccgagguuugaggcgccca
aaaugaucgggacucaaauccaccaccgagaccuguccguaccacucaua
cugguaaucgaguagauuggcgcucuaauuggauggaagcaggggcgaga
gcuccuguggaccgauuagugacgaaaauccuggccauaguagcagcgau
agucgggugagaaccccgacggccuaauggauaaggguuccucagcacug
cugaucagcugaggguuagccgguccuaagucucaccgcaacucgacuga
gacgaaaugggaaacagguuaauauuccugugccaucaugcagugaaagu
ugacgcccuggggucgaucacgccgggcauucgcccggucgaaccgucca
acuccguggaagccguaauggcaggaagcggacgaacggcggcauaggga
aacgugauucaaccuggggcccaugaaaagacgagcaugauguccguacc
gagaaccgacacagguguccauggcggcgaaagccaaggccugucgggag
caaccaacguuagggaauucggcaaguuagucccguaccuucggaagaag
ggaugccugcuccggaacggagcaggucgcagugacucggaagcucggac
ugucuaguaacaacauaggugaccgcaaauccgcaaggacucguacgguc
acugaauccugcccagugcagguaucugaacaccucguacaagaggacga
aggaccugucaacggcggggguuaugacccucuuaagguagcguaguacc
uugccgcaucaguagcggcuugcaugaauggauuaaccagagcuucacug
ucccaacguugggcccggugaacuguacauuccagugcggagucuggaga
cacccagggggaagcgaagacccuauggagcuuuacugcaggcugucgcu
gagacguggucgccgaucggugacugcgacucucacuccgggaggaggac
accgauagccgggcaguuugacuggggcgguacgcgcucgaaaagauauc
gagcgcgcccuauggucaucucagccgggacagagacccggcgaagagug
caagagcaaaagaugacuugacaguguucuucccaacgaggaacgcugac
gcgaaagcguggucuagcgaaccaauuagccugcuugaugcgggcaauug
augacagaaaagcuacccuagggauaacagagucgucacucgcaagagca
cauaucgaccgaguggcuugcuaccucgaugucgguucccuccauccugc
ccgugcagaagcgggcaagggugagguuguucgccuauuaaaggaggucg
ugagcuggguuuagaccgucgugagacaggucggcugcuaucuacugggu
guguaauggugucugacaagaacgaccguauaguacgagaggaacuacgg
uugguggccacugguguaccgguuguucgagagagcacgugccggguagc
cacgccacacgggguaagagcugaacgcaucuaagcucgaaacccacuug
gaaaagagacaccgccgaggucccgcguacaagacgcggucgauagacuc
ggggugugcgcgucgagguaacgagacguuaagcccacgagcacuaacag
accaaagc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v9f Revisiting the Haloarcula marismortui 50S ribosomal subunit model.
• Resolution: 2.404 Å
• Binding residue (original residue number in PDB): T8 G9 S10 G12 R13 G15 A16 R17 Y18 G19 R20 V21 R23 R46 R49 T52 Y59 Y69
• Binding residue (residue number reindexed from 1): T2 G3 S4 G6 R7 G9 A10 R11 Y12 G13 R14 V15 R17 R40 R43 T46 Y53 Y63

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v9f, PDBe:4v9f, PDBj:4v9f
• PDBsum: 4v9f
• PubMed: 23695244
• UniProt: P60619|RL37A_HALMA Large ribosomal subunit protein eL43 (Gene Name=rpl37ae)