Structure of PDB 4v8m Chain A2 Binding Site BS01

Receptor Information

>4v8m Chain A2 (length=187)

KAPKLFNKWSYENLQTTEIALNDYITRTPTYVPHSAGRWQKKRFRKARIP
IVERLTNGLMFKGRGNGKKLQAVRLVRHTLEIIHLLTDQNPIQVVIDAVS
KGAPREDSTRVGAGGVVRRQAVDVSPMRRVNEAIYLMCKGAREAAFRNLK
TLPECLADEIVNASKGSSNSYAIKKKDEVERVAKANR

Ligand information

>4v8m Chain AA (length=2227)

gaucugguugauucugccaguagucauaugcuuguuucaaggacuuagcc
augcaugccucagaaucacugcauugcaggaaucugcgcauggcucauua
caucagacguaaucugccgccaaaauuuugcggucuccgcauuacuggau
aacuuggcgaaacgccaagcuaauacaugaaccaaucggacgcucucuuu
uucuaugucgcggcuuguguuuacgcacuugucguggcgaugagacgucc
agcgaaugaaugaaauuagaaccaacgccuccacccgggggcaguaacac
ucagacguguugacucaauucauuccgugcgaaagccgagccuuuuugcu
cggcgucuacugacgaacaacugcccuaucagccagugauggccguguag
uggacugccauggcguugacgggagcgggggauuaggguucgauuccgga
gagggagccugagaaauagcuaccacuucuacggagggcagcaggcgcgc
aaauugcccaaugucgaaaaaauacgaugaggcagcgaaaagaaauagag
ccgaccgugcccuagugcaugguuguuuucaaugggggauacucaaaccc
auccaauaucgaguaacaauuggaggacaagucuggugccagcacccgcg
guaauuccagcuccaaaagcguauauuaaugcuguugcuguuaaaggguu
cguaguugaacugugggccacguaguuuugugccgugccagucccgucca
ccucggacguguuuugacccacgcccucguggcccgugaacacacucaga
uacaagaaacacgggagcgguuccuccucacuuucacgcaugucaugcau
gcgagggggcguccgugaauuuuacugugaccaaaaaagugcgaccaaag
cagucugccgacuugaauuacaaagcaugggauaacgaagcaucacaccg
uuucggcuuuuguugguuuuagaaguccuugggagauuauggggccgcgu
gccuugggucgguguuucgugucucauuuuuguggcgcgcacauucggcu
cuucgugauguuuuuuuacauucauugcgacgcgcggcuuccaggaauga
aggaggguaguucgggggagaacguacuggugcgucagaggugaaauucu
uagaccgcaccaagacgaacuacagcgaaggcauucuucaaggauaccuu
ccucaaucaagaaccaaaguguggggaucaaagaugauuagagaccauug
uaguccacacugcaaaccaugacacccaugaauuggggaacaucauuggg
ugcccguguggcggccuuuugugccgacccucggccccaauuuauuuauc
aauuuacgugccuauucuaucacccccgguucccucuuuugagguucuuc
cgggguuuuuuacgggaauauccucagcacguuucuuacuucuucacgcg
aaagcuuggagguuacagucucaggggggaguacguucgcaagagugaaa
cuuaaagaaauugacggaauggcaccacaagacguggagcgugcgguuua
auuugacucaacacggggaacuuuaccagauccggacagggugaggauug
acagauggaguguucuuucucgauccccugaaugguggugcauggccgcu
uuuggucgguggagugauuuguuugguugauuccgucaacggacgagauc
caagcugcccaguaggugccgggauugcagucccuccggcggggauuuuu
uccccaacgguggucgucauccuucuuuuuacaggccccuucucugcggg
auuccuugcuuuucgcgcaaggugagauuuugggcaacagcaggucugug
augcuccucaauguucugggcgacacgcgcacuacaaugucagugagaac
aagaguccgagcggcacuucacaaugucgcucccgcuugaucaaaagagc
ggggaaaccacggaaucacguagacccacuugggaccgaguauugcaauu
auuggucgcgcaacgaggaaugucucguaggcgcagcucaucaaacugug
ccgauuacgucccugccauuuguacacaccgcccgucguuguuuccgaug
auggugcaauacaggugaucggaccgucgcucgucucgggcgaccgaaag
uucaccgauauugcuucaauagaggaagcaaaagucguaacaagguagcu
guaggugaaccugcagcuggaucauuu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8m High-Resolution Cryo-Electron Microscopy Structure of the Trypanosoma Brucei Ribosome.
• Resolution: 5.57 Å
• Binding residue (original residue number in PDB): H37 A39 R41 Q43 K44 K45 R46 K49 R57 N60 M63 G66 R67 G68 N69 G70 K71 K72 L73 Q74 R77 N134 Y138 A148 R150 L152 T154 L155
• Binding residue (residue number reindexed from 1): H34 A36 R38 Q40 K41 K42 R43 K46 R54 N57 M60 G63 R64 G65 N66 G67 K68 K69 L70 Q71 R74 N131 Y135 A145 R147 L149 T151 L152

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v8m, PDBe:4v8m, PDBj:4v8m
• PDBsum: 4v8m
• PubMed: 23395961
• UniProt: Q385D9