Structure of PDB 3jbp Chain AL Binding Site BS01

Receptor Information

>3jbp Chain AL (length=211) Species: 36329 (Plasmodium falciparum 3D7)

VAHNNVLPNVHLHKWWQHRVRVNFSKNIKKKKRRLLREKRRKANGGTPIE
KLHPIVHCPTQRYNFRTRLGKGFTFEELKGAGLTPRAAQTIGICYDKRRK
NRSEESLTKNVERLLKYKNSLVMIPLKKNKAKKGIGGIPADADKNTIKEF
RNKKPLLSIFKKEKNTKPFYETIEVSKIDKEFLAYKTLRRAKLAERRKNC
RQQKKDIKFKS

Ligand information

>3jbp Chain AA (length=3193)

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
ugaggacauuaauguuaacucagaacugaaacggacaaggggaauccgac
uguuuaauuaaaacauagcauugugaaaagccacaacugguauuaacaca
augugauuucugcccagugcuuugaaugucaacuugaugaaauucaauca
agcgcagguaaacggcgggaguaacuaugacucucuuaagguagccaaau
gccucgucaucuaauuagugacgcgcaugaauggauuaacgagauuccca
cugucccuacuugcuaucuagcgaaaccacagccaagggaacgggcuugg
caaaaucagcggggaaagaagacccuguugagcuuuacucuagucuggcu
uugugaaacgacuuaagaggugcuacuuuuaaaguuguuuuacuuaucca
uuuauagggaugaauuucccaauauggagacauagccagguggggaguuu
gacuggggcgguacaucuguuaaauauuaacgcagauguccaaagacaag
cucaaagagaacagaaaucucuuguagacuaaaaggggaaaagcuuguuu
gauuucuauuuucagaacaaguagaaaacgugaaagcguggccuaucgau
ccuuuauauuugcaaaaugacguaaauuacuuacuacugugcauauagag
gugucugaaaaguuaccacagggauaacuggcuuguggcugccaagcgcu
ccuagcgacguagcuuuuugauccuucgaugucggcucuuccuaucauug
ggacgcagaagucucaaagugucggauuguucacccgcuaauagggaacg
ugagcuggguuuagaccgucgugagacagguuaguuuuacccuacugaug
aauuuuauuauauauauacauauaguauugugacaguaauccaacuuggu
acgagaggauuaguugguucagacaauugguacagcaauugguugacaaa
ccaguguugcgaagcuaagucuguuggauaauggcugaacgccucuuaag
ccagaaaccaugcugauuaaacaauacuaucuuuuuuguuugcuaaugua
aaagagaaauuauauauguaccgguacauaaauaauccuaucaccuuuuu
cgugagcugagcugugagcuaggcaauaguucuuuaacaacaaaaaagag
cacaaacuguagacgacuuuuuugccucagggugcuguaaacaugaaagu
aaacuuuacgaucuguugaggcuuaucccuagugguaaagugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3jbp Dynamical features of the Plasmodium falciparum ribosome during translation.
• Resolution: 6.7 Å
• Binding residue (original residue number in PDB): V2 A3 H4 N6 N10 H12 H14 K15 W17 Q18 R22 K27 N28 K30 K31 K32 R34 R35 R38 R41 K52 V57 H58 C59 P60 T61 R63 Y64 N65 F66 R67 R69 G71 K72 K80 K98 R99 R100 K101 R103 S104 K128 K129 K133 K134 G135 I136 K145 K149 R152 K163 K168 L184 Y186 K187 R190 R191 K193 R197 R198 Q204 K205 K206 F210 K211
• Binding residue (residue number reindexed from 1): V1 A2 H3 N5 N9 H11 H13 K14 W16 Q17 R21 K26 N27 K29 K30 K31 R33 R34 R37 R40 K51 V56 H57 C58 P59 T60 R62 Y63 N64 F65 R66 R68 G70 K71 K79 K97 R98 R99 K100 R102 S103 K127 K128 K132 K133 G134 I135 K144 K148 R151 K162 K167 L183 Y185 K186 R189 R190 K192 R196 R197 Q203 K204 K205 F209 K210

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:3jbp, PDBe:3jbp, PDBj:3jbp
• PDBsum: 3jbp
• PubMed: 26432834
• UniProt: Q8IAX6