Structure of PDB 3jbo Chain AH Binding Site BS01

Receptor Information

>3jbo Chain AH (length=185) Species: 36329 (Plasmodium falciparum 3D7)

KTIVSTQKVLIPEGVKVAINARKVTVSGKYGTLRRSFRHLPIDIRLNKLK
KYIKVVMWFGVPDSLACIRTVCTHLKNMFTGVTKKFLYKMRLVHAHFPIN
SNIVDNNTRIEIRNYLGEKSVRFVKALPGVVIEKSPNVKDEIYVSGADIE
NVSLTAALIHQSVLCRNKDIRKFLDGIYVSEVTTV

Ligand information

>3jbo Chain AA (length=3192)

gauguuaggagggcaaauccgccgaauuuaagcauauaauuaagcggaag
aaaagaaaauaacuaugauuccuuuaguaacggcgagugaacaaggacca
gcucaaacgguuaauccuucguuuggugcaaaccuuucgacggaauuguc
guugaauuauuccaugaaugccuuuaauuugagcaaagugagcaggaaug
cuuccccauagagggugaaaggcccauaguucuuuuuaauuuauucauug
gaauuuuucaugucgagucguguucuuugagauuggagcacuaauacgug
ugauacauuucacauaaagcuaaauauauguaggagaccgauagcaaaca
aguaccgugagggaaagaugaaauaguacucaggaaugagcaauuaaaua
guaccugaaaucguuaagauggaacggauuaagagagaaaacaaguaaag
aggggaauauucucuucuuuauuaaaagaaacaucagugauuaauuuaau
uucaauaaagcaauccccugaaauuguuuucacuuucuccccgcacuaau
guggggaaaacuggcuuuauuucuucaauuauuuuuuuugcugaggaauu
uuaaaauuauuugaauuuuucuucuuauaauuuaaguuguuucuauacag
uacuuucuuaacccacucgucuugaaacacggaccaaggagucuagcaaa
ugugcaaguguauaugauucuuuaaacauuuuacgcauaauuaauguaau
auguccauuguagauuugugccccacuuugcauacaauaccgguaagcaa
augcuuuauugaguacgagcauauuugguaggacccgagaggcuuugaac
uaagcgugaugagauugaagucagacgaaagucugauggaggaucgaguu
gauacugacgugcaaaucguucauuucaaucacguuuaggggcgaaagac
uaaucgaaaagccuauuagcugguuauuuucgaaagaucucucaggaucg
cuggaguugauuaauauaauuuuaccagguagagauaaugauuagaggac
agggccuugaccuauucucaaacucccaauagguaaaaagggcgaaauaa
cucaauuuguauuucacucauauuaaauaaaauaacuccaagugggccau
uuuugguaagcagaacuggcgaugagggaugcuccuaacgcuuggauaag
gugccuaaauauucgcucaugagaucccauaaaagguguugguucauaug
aacuagcccugaaaauggauggcgcuaaagcggauuaccgauaccaagcc
auaaaaagaagaaaaaauuuuuuuuuagaaucuuuuuaugaguagaaaau
cgugggguuuguguugaagcgaaauacgugaguuuucguggaacaucucc
cuagugcagaucuugguggaaguagcaacuauucaaaugagaacuuugaa
gacugaaguggagaaggguuucuugucaacugugauugaacaagaguuag
ccgcuccuaagggauagcugaaaaguguuuaaagggguccccgucucaaa
agggaaacagguugauauuccugugccaauaguauuaugaguuagauggu
aacauauauauaaaugaacuccuuuacauaggcuuuacacucggggugcg
uuuucuuugcacuuuaccuuuauaacaaaccuuggaaucaauuuacuugg
agaagagguucguugaacucaauucaaaaauuuguuuuguagcaauagua
auucguaauuauccgaagugguaaggacuauccuugaaaaaaggagggaa
cggcuuugugcuuugcuacucuuaauacuuguaugagcguaccaacaacc
gcaucaggucuccaagguuaacagccucugguuaaauagaaaaaaguagg
uaagggaagucggcaaaauagauccguaacuucgggaaaaggauuggcuc
ugaggacauuauguuaacucagaacugaaacggacaaggggaauccgacu
guuuaauuaaaacauagcauugugaaaagccacaacugguauuaacacaa
ugugauuucugcccagugcuuugaaugucaacuugaugaaauucaaucaa
gcgcagguaaacggcgggaguaacuaugacucucuuaagguagccaaaug
ccucgucaucuaauuagugacgcgcaugaauggauuaacgagauucccac
ugucccuacuugcuaucuagcgaaaccacagccaagggaacgggcuuggc
aaaaucagcggggaaagaagacccuguugagcuuuacucuagucuggcuu
ugugaaacgacuuaagaggugcuacuuuuaaaguuguuuuacuuauccau
uuauagggaugaauuucccaauauggagacauagccagguggggaguuug
acuggggcgguacaucuguuaaauauuaacgcagauguccaaagacaagc
ucaaagagaacagaaaucucuuguagacuaaaaggggaaaagcuuguuug
auuucuauuuucagaacaaguagaaaacgugaaagcguggccuaucgauc
cuuuauauuugcaaaaugacguaaauuacuuacuacugugcauauagagg
ugucugaaaaguuaccacagggauaacuggcuuguggcugccaagcgcuc
cuagcgacguagcuuuuugauccuucgaugucggcucuuccuaucauugg
gacgcagaagucucaaagugucggauuguucacccgcuaauagggaacgu
gagcuggguuuagaccgucgugagacagguuaguuuuacccuacugauga
auuuuauuauauauauacauauaguauugugacaguaauccaacuuggua
cgagaggauuaguugguucagacaauugguacagcaauugguugacaaac
caguguugcgaagcuaagucuguuggauaauggcugaacgccucuuaagc
cagaaaccaugcugauuaaacaauacuaucuuuuuuguuugcuaauguaa
aagagaaauuauauauguaccgguacauaaauaauccuaucaccuuuuuc
gugagcugagcugugagcuaggcaauaguucuuuaacaacaaaaaagagc
acaaacuguagacgacuuuuuugccucagggugcuguaaacaugaaagua
aacuuuacgaucuguugaggcuuaucccuagugguaaagugu

.................<<<<<......<......>.......>>>>>..
..<.....<<....>>...<<<<<.....<<.....>>....>>>>>...
<<<...<<<.....<<<.<<<...<<<....>>>...>>>.>>>.....>
>>.<<<..<<<<<<<<<<<....<<<<...<<<<.....<<<<......>
>>>.((......<<<.....))>>>...>>>>...>>>>...>>>>>.>>
>>>>..>>>..........<<<<<<<........>>>>>>>......<<<
<<..[[((((>>>>>..>>>....>.........................
....<<....>>................<<<<....>>>>..........
.........................<<.<<<<<<<<<.......<<<<<<
<<<<<<<..>>>>>>>>>>>>>....<<<<<<<.<<<<<<..<<..<<<<
...<<<<<<<<.......<<<<<....>>>>>..<<.<<<<<<.......
.>>>>>>>>....>>>>>>>>......>>>>..>>..>>>>>>.......
....<<<<<<..<<<......>>>..>>>>>>.....>>>>>>>......
..>>>>>>>>>.>>..<<<<........>>>><<<<<<....<<<.<<<<
<<<<<..<<<...<<<..........>>>....>>>...<<....>>...
.......<<<<<.....<<.....>>......>>>>><<<<<<<<<<<..
..>>>.>>>>>.>>>...>>>>>>>>>.>>>..<<.<..<<<<<<<....
.<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.....>>>....<
<..<<.<<........>>>>.>>.....>>>>>>>>>...<<.......>
>......>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>><
<<<<<<<<........<<.<<<<<<<.....<<<....<<<....<<<.<
<<<..>>>>.>>>....>>>..>>.>.....>>>>>...<<<.<<<<<<.
<.......>>>>>>>.>>>......>>>>....>>>>>>>.>>..<<<<.
<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<....<
<<(((.....<<<<<<.....<<..........<<<.<<<<<<<<<..>>
>>>>>>>>>>..........))).>>...>>>>>>.>>>....>>>>>><
<<<<<<<<...<<<<<<..>>>>>>......>>>>>>>>>....>>>>>>
..<<<<<..<<<......<<<<<<.<<....>>>>>>>>...>>>...>>
>>>........>>>>>><<.....<<.....<<<<<<.......>>>>>>
<<<<.....<<<<<.<<...<<<<<<...<.......>.>>>>>>....(
(<<<<<<...<<<<..<<<....>>>.......<<<<.>>>>.>>>>...
.>>...<<<<<........>>>>>))<...<<<<<<<.<<<<...<<<..
..>>>...........((<<<<<<...<<<<.<<<<<<<<<..<<<<<<<
...{{..>>>>>>....<<...<<<<.<<<<<<.....<<<.....>>>.
....>>>>>>.>>>>....<<<..<<<....>>>..>>>.>>.....<..
<.<....>.>..>>..>>>.>>>>>>.>>>>.........>>>>>>....
.<<<...<..>...>>>>>>>.>>>>>>>.....>>>>>..>>.....<<
......>>>>>>>.<<<<.....>>>>..>>>>...<<<<....<<<<<<
<<.<<...............<<<<<....<....>.....>>>>><<.<<
<<<<<<<<<.>>>>>..>>>>>>.>>............<<<<<<<<<..<
<<.........>>>..<<<<<<<.....<<<<....>>>>......>>>>
>>>...<<..<<<..<<<<<<....<<<....<<<<......>>>>....
>>>.>>>>..>>>>><<<<<<.......>>>>>>........<.......
....<<<<<.......>>>>>.....>.....>>....>>.>>>>>>>..
...>>.>>>>>>>>.>>>>>>....>>....<<<<<........>>>>>.
...<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<<<.
.<<<<<<<<<<<<<<<<<......>>>>>>.>>>>>>>>>>>...<<<<<
......<<.....)).>>....>>>>>.....>>>>>>>>..>>>>>...
<<<.....>>>..<<<<<<...........>>>>>>..<<...<<<<<<<
...<<<<<<.......>>>>>>.....<<...(((>>....>>>>>>>..
.<<<<<<<<<.......>>>>>>>>>.<<<....>>>.>>)))......<
<<<<<<<..<<<.))))...<<<<.....>>>>....]]>>>>>>>>>>>
.........>>>>..>>>>>>.......<<.<.<.<<<<<<...<<....
...>>...>>>>>>...>>.>.>.......<<<<<.<<<<<<..<<<<<<
<<<......>>>>>>..>>>.<<<.<.....>.>>>.....>>>>>..>.
..>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>.>>>>>..
....<<<.<<<..>>>..>>><<<<<<<<<..<<<<.<.<<<<<<.....
..........>>>>>>.><<<<<....<<<...<<<<<<<<<<}}..>>>
>>..>>>>>...>>>..>>>>>.<<<....<<<<<............>>>
>>....>>>.>>>>.....>>>>>>>>>.<<<<<<<<<.......<<<..
....<<.......<<<<<<<<>>>>>>>>.....>>......<<<..<<<
<<<.<.....>>>>>>>..>>>.............>>>>>>>>>>>>.<<
<<.<<.............>>..<<<..<<<<.<<<....<<<.<<..<<<
<<.>>>>>..>>>>>...>>>....>>>>...>>>...>>>>

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3jbo Dynamical features of the Plasmodium falciparum ribosome during translation.
• Resolution: 5.8 Å
• Binding residue (original residue number in PDB): K2 T7 K9 N21 R23 R39 H40 P42 D44 R46 K51 K55 M58 W59 A67 R70 T71 T74 H75 Y89 F98 K120 S154 Q162 C166 R167 N168 K169 D170 R172 K173
• Binding residue (residue number reindexed from 1): K1 T6 K8 N20 R22 R38 H39 P41 D43 R45 K50 K54 M57 W58 A66 R69 T70 T73 H74 Y88 F97 K119 S153 Q161 C165 R166 N167 K168 D169 R171 K172

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• 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:3jbo, PDBe:3jbo, PDBj:3jbo
• PDBsum: 3jbo
• PubMed: 26432834
• UniProt: Q8IE85