Structure of PDB 5a2q Chain L Binding Site BS01

Receptor Information

>5a2q Chain L (length=151) Species: 9606 (Homo sapiens)

ADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAI
EGTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNR
FEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKAAGT
K

Ligand information

>5a2q Chain 2 (length=1665)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
ccggcggcgacgacccauucgaacgucugcccuaucaacuuucgauggua
gucgccgugccuaccauggugaccacgggugacggggaaucaggguucga
uuccggagagggagccugagaaacggcuaccacauccaaggaaggcagca
ggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaa
caauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaa
uccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcuc
guaguuggaucucucucggccgaagcguuuacuuugaaaaaauuagagug
uucaaagcaggccgccuggauaccgcagcuaggaauaauggaauaggacc
gcgguucuauuuuguugguuuucggaacugaggccaugauuaagagggac
ggccgggggcauucguauugcgccgcuagaggugaaauucuuggaccggc
gcaagacggaccagagcgaaagcauuugccaagaauguuuucauuaauca
agaacgaaagucggagguucgaagacgaucagauaccgucguaguuccga
ccauaaacgaugccgaccggcgaugcggcggcguuauucccaugacccgc
cgggcagcuuccgggaaaccaaagucuuuggguuccggggggaguauggu
ugcaaagcugaaacuuaaaggaauugacggaagggcaccaccaggagugg
agccugcggcuuaauuugacucaacacgggaaaccucacccggcccggac
acggacaggauugacagauugauagcucuuucucgauuccguggguggug
gugcauggccguucuuaguugguggagcgauuugucugguuaauuccgau
aacgaacgagacucuggcaugcuaacuaguuacgcgaccggucggcguaa
cuucuuagagggacaaguggcguucagccacccgagauugagcaauaaca
ggucugugaugcccuuagauguccggggcugcacgcgcgcuacacugacu
ggcucagcguguccuacgccggcaggcgcggguaacccguugaaccccau
ucgugauggggaucggggauugcaauuauuccccaugaacgaggaauucc
caguaagugcgggucauaagcuugcguugauuaagucccugcccuuugua
cacaccgcccgucgcuacuaccgauuggaugguuuagugaggcccucgga
ucggccccgccggggugcccuggcggagcgcugagaagacggucgaacuu
gacuaucuagaggaaguaaaagucguaacaagguuuccguaggugaaccu
gcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5a2q Cryo-Em Structure of Hepatitis C Virus Ires Bound to the Human Ribosome at 3.9 Angstrom Resolution
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): E7 R8 Q11 T15 F17 Y36 N39 I40 G41 L42 K58 K59 N65 S67 I68 R69 R71 K79 K81 M82 Q83 V87 R90 Y92 H94 K98 K104 R105 H106 K107 N108 R132 P133 S135 K136 T137 A149 K152
• Binding residue (residue number reindexed from 1): E6 R7 Q10 T14 F16 Y35 N38 I39 G40 L41 K57 K58 N64 S66 I67 R68 R70 K78 K80 M81 Q82 V86 R89 Y91 H93 K97 K103 R104 H105 K106 N107 R131 P132 S134 K135 T136 A148 K151

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5a2q, PDBe:5a2q, PDBj:5a2q
• PDBsum: 5a2q
• PubMed: 26155016
• UniProt: P62280|RS11_HUMAN Small ribosomal subunit protein uS17 (Gene Name=RPS11)