Structure of PDB 2qa4 Chain F Binding Site BS01

Receptor Information

>2qa4 Chain F (length=119) Species: 2238 (Haloarcula marismortui)

PVYVDFDVPADLEDDALEALEVARDTGAVKKGTNETTKSIERGSAELVFV
AEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTD
AGEADADVEDIADKVEELR

Ligand information

>2qa4 Chain 0 (length=2753)

uaugccagcugguggauugcucggcucaggcgcugaugaaggacgugcca
agcugcgauaagccauggggagccgcacggaggcgaagaaccauggauuu
ccgaaugagaaucucuaacaauugcuucgcgcaaugaggaaccccgagaa
cugaaacaucucaguaucgggaggaacagaaaacgcaaugugaugucguu
aguaaccgcgagugaacgcgauacagcccaaaccgaagcccucacgggca
auguggugucagggcuaccucucaucagccgaccgucucgacgaagucuc
uuggaacagagcgugauacagggugacaaccccguacucgagaccaguac
gacgugcgguagugccagaguagcggggguuggauaucccucgcgaauaa
cgcaggcaucgacugcgaaggcuaaacacaaccugagaccgauagugaac
aaguagugugaacgaacgcugcaaaguacccucagaagggaggcgaaaua
gagcaugaaaucaguuggcgaucgagcgacagggcauacaaggucccucg
acgaaugaccgacgcgcgagcguccaguaagacucacgggaagccgaugu
ucugucguacguuuugaaaacgagccagggagugugucugcauggcaagu
cuaaccggaguauccggggaggcacagggaaaccgacauggccgcagggc
uugcccgagggccgccgucuucaagggcggggagccauguggacacgacc
cgaauccggacgaucuacgcauggacaagaugaagcgugccgaaaggcac
guggaagucuguuagaguugguguccuacaauacccucucgugaucuaug
uguaggggugaaaggcccaucgaguccggcaacagcugguuccaaucgaa
acaugucgaagcaugaccuccgccgagguagucugugagguagagcgacc
gauugguccugucaaacuccaaacuuacagacgccguuugacgcggggau
uccggugcgcgggguaagccuguguaccaggaggggaacaacccagagau
agguuaagguccccaaguguggauuaaguguaauccucugaagguggucu
cgagcccuagacagccgggaggugagcuuagaagcagcuacccucuaaga
aaagcguaacagcuuaccggccgagguuugaggcgcccaaaaugaucggg
acucaaauccaccaccgagaccuguccguaccacucauacugguaaucga
guagauuggcgcucuaauuggauggaaguaggggugaaaacuccuaugga
ccgauuagugacgaaaauccuggccauaguagcagcgauagucgggugag
aaccccgacggccuaauggauaaggguuccucagcacugcugaucagcug
aggguuagccgguccuaagucauaccgcaacucgacuaugacgaaauggg
aaacggguuaauauucccgugccacuaugcagugaaaguugacgcccugg
ggucgaucacgcugggcaucgcccagucgaaccguccaacuccguggaag
ccguaauggcaggaagcggacgaacggcggcauagggaaacgugauucaa
ccuggggcccaugaaaagacgagcauaguguccguaccgagaaccgacac
agguguccauggcggcgaaagccaaggccugucgggagcaaccaacguua
gggaauucggcaaguuagucccguaccuucggaagaagggaugccugcuc
cggaacggagcaggucgcagugacucggaagcucggacugucuaguaaca
acauaggugaccgcaaauccgcaaggacucguacggucacugaauccugc
ccagugcagguaucugaacaccucguacaagaggacgaaggaccugucaa
cggcgggggucuuaagguagcguaguaccuugccgcaucaguagcggcuu
gcaugaauggauuaaccagagcuucacugucccaacguugggcccgguga
acuguacauuccagugcggagucuggagacacccagggggaagcgaagac
ccuauggagcuuuacugcaggcugucgcugaggacucucacuccgggagg
aggacaccgauagccgggcaguuugacuggggcgguacgcgcucgaaaag
auaucgagcgcgcccuauggcuaucucagccggggacccggcgaagagug
caagagcaaaagauagcuugacaguguucuucccaacgaggaacgcugac
gcgaaagcguggucuagcgaaccaauuagccugcuugaugcgggcaauug
augacagaaaagcuacccuagggauaacagagucgucacucgcaagagca
cauaucgaccgaguggcuugcuaccucgaugucgguucccuccauccugc
ccgugcagaagcgggcaagggugagguuguucgccuauuaaaggaggucg
ugagcuggguuuagaccgucgugagacaggucggcugcuaucuacugggu
guguaggugucugacaagaacgaccguauaguacgagaggaacuacgguu
gguggccacugguguaccgguuguucgagagagcacgugccggguagcca
cgccacacgggguaagagcugaacgcaucuaagcucgaaacccacuugga
aaagagacaccgccgaggucccgcguacaagacgcggucgauagacucgg
ggugugcgcgucgagguaacgagacguuaagcccacgagcacuaacagac
caa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2qa4 Structure of the base of the L7/L12 stalk of the Haloarcula marismortui large ribosomal subunit: Analysis of L11 movements
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): K31 G32 T33 N34 E35 K38 R42 V54 Q55 I59 Q80 L89 G92 S93 A94
• Binding residue (residue number reindexed from 1): K31 G32 T33 N34 E35 K38 R42 V54 Q55 I59 Q80 L89 G92 S93 A94

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0004526 ribonuclease P activity
• GO:0019843 rRNA binding

Biological Process

• GO:0001682 tRNA 5'-leader removal
• GO:0006412 translation
• GO:0008033 tRNA processing
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:2qa4, PDBe:2qa4, PDBj:2qa4
• PDBsum: 2qa4
• PubMed: 17599351
• UniProt: P12743|RL7A_HALMA Large ribosomal subunit protein eL8 (Gene Name=rpl7ae)