Structure of PDB 1ffk Chain B Binding Site BS01

Receptor Information

>1ffk Chain B (length=337) Species: 2238 (Haloarcula marismortui)

PQPSRPRKGSLGFGPRKRSTSETPRFNSWPSDDGQPGVQGFAGYKAGMTH
VVLVNDEPNSPREGMETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVW
TDEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAV
PSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYAD
VAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRSTV
PQQGQTGYHQRTELNKRLIDIGEGDEPTVDGGFVNYGEVDGPYTLVKGSV
PGPDKRLVPFFRPAVRPNDQPRLDPEVRYVSNESNQG

Ligand information

>1ffk Chain 0 (length=2706)

uaugccagcugguggauugcucggcucaggcgcugaugaaggacgugcca
agcugcgauaagccauggggagccgcacggaggcgaagaaccauggauuu
ccgaaugagaaucucuacaauugcuucgcgcaaugaggaaccccgagaac
ugaaacaucucaguaucgggaggaacagaaaacgcaaugugaugucguua
guaaccgcgagugaacgcgauacagcccaaaccgaagcccucacgggcaa
uguggugucagggcuaccucucaucagccgaccgucucgacgaagucucu
uggaacagagcgugauacagggugacaaccccguacucgagaccaguacg
acgugcgguagugccagaguagcggggguuggauaucccucgcgaauaac
gcaggcaucgacugcgaaggcuaaacacaaccugagaccgauagugaaca
aguagugugaacgaacgcugcaaaguacccucagaagggaggcgaaauag
agcaugaaaucaguuggcgaucgagcgacagggcauacaaggucccucga
cgaaugaccgacgcgcgagcguccaguaagacucacgggaagccgauguu
cugucguacguuuugaaaaacgagccagggagugugucugcauggcaagu
cuaaccggaguauccggggaggcacagggaaaccgacauggccgcagggc
uugcccgagggccgccgucuucaagggcggggagccauguggacacgacc
cgaauccggacgaucuacgcauggacaagaugaagcgugccgaaaggcac
guggaagucuguuagaguugguguccuacaauacccucucgugaucuaug
uguaggggugaaaggcccaucgaguccggcaacagcugguuccaaucgaa
acaugucgaagcaugaccuccgccgagguagucugugagguagagcgacc
gauugguccugucaaacuccaaacuuacagacgccguuugacgcggggau
uccggugcgcgggguaagccuguguaccaggaggggaacaacccagagau
agguuaagguccccaaguguggauuaaguguaauccucugaagguggucu
cgagcccuagacagccgggaccggccgagguuugaggcgcccaaaaugau
cgggacucaaauccaccaccgagaccuguccguaccacucauacugguaa
ucgaguagauuggcgcucuaauuggauggaaguaggggugaaaacuccua
uggaccgauuagugacgaaaauccuggccauaguagcagcgauagucggg
ugagaaccccgacggccuaauggauaaggguuccucagcacugcugauca
gcugaggguuagccgguccuaagucauaccgcaacucgacuaugacgaaa
ugggaaacggguuaauauucccgugccacuaugcagugaaaguugacgcc
cuggggucgaucacgcugggcaucgcccagucgaaccguccaacuccgug
gaagccguaauggcaggaagcggacgaacggcggcauagggaaacgugau
ucaaccuggggcccaugaaaagacgagcauaguguccguaccgagaaccg
acacagguguccauggcggcgaaagccaaggccugucgggagcaaccaac
guuagggaauucggcaaguuagucccguaccuucggaagaagggaugccu
gcuccggaacggagcaggucgcagugacucggaagcucggacugucuagu
aacaacauaggugaccgcaaauccgcaaggacucguacggucacugaauc
cugcccagugcagguaucugaacaccucguacaagaggacgaaggaccug
ucaacggcgggggucuuaagguagcguaguaccuugccgcaucaguagcg
gcuugcaugaauggauuaaccagagcuucacugucccaacguugggcccg
gugaacuguacauuccagugcggagucuggagacacccagggggaagcga
agacccuauggagcuuuacugcaggcugucgcugaggacucucacuccgg
gaggaggacaccgauagccgggcaguuugacuggggcgguacgcgcucga
aaagauaucgagcgcgcccuauggcuaucucagccggggacccggcgaag
agugcaagagcaaaagauagcuugacaguguucuucccaacgaggaacgc
ugacgcgaaagcguggucuagcgaaccaauuagccugcuugaugcgggca
auugaugacagaaaagcuacccuagggauaacagagucgucacucgcaag
agcacauaucgaccgaguggcuugcuaccucgaugucgguucccuccauc
cugcccgugcagaagcgggcaagggugagguuguucgccuauuaaaggag
gucgugagcuggguuuagaccgucgugagacaggucggcugcuaucuacu
ggguguguggugucugacaagaacgaccguauaguacgagaggaacuacg
guugguggccacugguguaccgguuguucgagagagcacgugccggguag
ccacgccacacgggguaagagcugaacgcaucuaagcucgaaacccacuu
ggaaaagagacaccgccgaggucccgcguacaagacgcggucgauagacu
cggggugugcgcgucgagguaacgagacguuaagcccacgagcacuaaca
gaccaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1ffk The complete atomic structure of the large ribosomal subunit at 2.4 A resolution.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): G9 G12 G14 T49 P115 G207 G209 G212 G230 G236 R245 G281 N285 G287 G298 G337
• Binding residue (residue number reindexed from 1): G9 G12 G14 T49 P115 G207 G209 G212 G230 G236 R245 G281 N285 G287 G298 G337

Gene Ontology

Molecular Function

• 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:1ffk, PDBe:1ffk, PDBj:1ffk
• PDBsum: 1ffk
• PubMed: 10937989
• UniProt: P20279|RL3_HALMA Large ribosomal subunit protein uL3 (Gene Name=rpl3)