Structure of PDB 4v8p Chain HB Binding Site BS02

Receptor Information

>4v8p Chain HB (length=51) Species: 5911 (Tetrahymena thermophila)

GANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLKI
Y

Ligand information

>4v8p Chain H1 (length=3119)

cuacaccugaaacaagcaagauuacccgcugaacuuaagcauaucaguaa
gcggaggaaaagaaacuaacuaggauagccccaguaauggcgaaugaaca
ggcuaaagcucaaagugaaaaucugaaguggucaacacaacagaauugua
aucuaaagggucaaccugaaacuaagcuccucucauaaguuccuuggaac
aggacgucaaagagggugacaaccccguagucggagaggaaggcuggugu
aagggagauuucaaagagucggguuguuugggauugcagcccuaaguggg
agauaaacuucuucuaaagcuaaauauacacgggagaccgauagcgaaca
aguacugcgaaggaaagaugaaaagaacuuugaaaagagggcuaaaagac
uugaaaccguugagaaggaagcuguagaagagcaauaaacuggacggcgc
auaagggggaaguacuaaucacugcagagucgauacguaaaaggucgaug
aguaaggaaaugguacagaacuugcuacgccggucagaagacaaaauggg
uucagauugaaggagucaccugagaucgggcagcaaugcagaucaaaagg
aaaacuucaaacuggacugaggggccuaagggcgauuuugucaaaauggc
uucuacugacccgucuugaaacacggaccaaggagucuaucaauuaagcg
agugauaggguggaaaaacccguccgcgaaacgaaagugaguacaaggug
ccaagccgcaagguagcagcaucacccgaccuugagucuccgacgaaggg
uucgaggaagagcuuaauuguuaggacccgaaagauggugaacuacgcuu
gaauagggugaagccaggggaaacucugguggaagcucguagcgauacug
acgugcaaaucguucgucaaauuugaguguaggggcgaaagacuaaucga
accaucuaguagcugguucccuccgaaguuucucucaggauagcaagagc
aaguacgcaguuuuauuagguaaagcgaaugauuagaggacucgggguuc
caagaaucucgaccuauucucaaacuuuaaauugguaagagccgcggagu
uuacuuaaaugaacucucgggaagaaugcagugcucuuagugggccauuu
uugguaagcagaacuggcgaugagggaugaaccuaacguugagauaaggc
gcccaaaugcacgcucaucagauaccacaaaagguguugguucauacgga
cagcaggccugccgaaugaacuagcccugaaaauggauggcgcugaagcg
uguugccgauacucaaccaucagagcaaaugcgaggcuuugaugaguagg
agggcgugaucguugccuagaaguauugggcgugagccuauauggagcag
cgauuagugcagaucuuggugguaguagcaaauauucaaaugagaacuuu
gaagaccgaaguggagaaggguuccaugagaacagcaauuguucaugggu
uacucgauccuaagacauagguuaacuccuugcaauacaagaagacauuc
guuuucguugucaaaagggaaugagguuaauauuccucaagcuggacgug
guauagagcgguaacgcaaagaaacccggagacgucagcaggugucacug
gaagaguuaucuuuucuuuuuaacauacuauggccaugaaauuggauuau
ccagagauaucggcuguauguauggcagagcagcucagagcugucaguug
cgcaccugaugacccuugaaaaucugggggagacauaauuucacgccagu
ucguacccauaaccgcaucaggucuccaagguuagcagccucugguccau
agaacaauguagauaagggaagucggcaaauuggauccguaacuucggga
uaaggauuggcucugaggaucucagaacugaagcggacaaagguaauccg
acuguuuaauaaaaacaaagcauugugacggccucaacaggugaugacac
aaugugauuucugcccagugcucugaaugucaaagugacgcaauucaacc
aagcgcggguaaacggcgggaguaacuaugacucucuuaagguagccaaa
ugccucgucaucuaauuagugacgcgcaugaauggauuaaugagauuacc
acugucccuaucuacuaucuagcgaacccacagcuaagggaacgggcuua
gaauaaucagcggggaaagaagacccuguugagcuugacucuagucuaac
uuugugaaauggcagucauuuugcuuauuucgugaagaaaagacuggugc
aaaccaguucuaaaguuaaggucauuuauugacugauuuuugcgaaagac
augguuagggggggaguuugucuggggcggaaugccuguuaaaccauaac
gcaggcguccuaaguguagcucagugagaacggaaaucucacguagaaca
aaaggguaaaagcuacauugauuuugauuuucaguaggaauacaaaccgc
gaaagcguggccuaucgauccuuuaacuuuacaaguuuuaagcuagaggu
gucagaaaaguuaccacagggauaacuggcuuguggcagccaagaguuca
uaucgacguugcuuuuugauccuucgaugucggcucuuccuaucauugug
aagcagaauucacaacgugucggauuguucacccgcuaauagggaacgug
agcuggguuuagaccgucgugagacagguuaguuuuacccuacugaugaa
acgauguugcgacaguaauuuaaguuaguacgagaggaacacuuaaauca
gauaauugguaaauacgguugucugaaaagacaaugccgugaagcuacca
ucuguuggauuaugacugaaggccucuaagucagaauccaugcuggaaag
caaugucuaagugugaugauaaacgaaaaaaaauaaaaauuaaguucgaa
agguagagcggggaagagcgaaaaagcuugaccuuaacugcuaaucguaa
uuccaaauuaucaucuacguaaaucuuuuguagacgacuuaacauggaac
ggguauuguaagcaugagaguagaauuuccuacgaucugcugagauucag
cccgucuccuuagauuuau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8p Crystal Structure of the Eukaryotic 60S Ribosomal Subunit in Complex with Initiation Factor 6.
• Resolution: 3.52 Å
• Binding residue (original residue number in PDB): G2 A3 N4 K5 L7 K10 F13 P22 I35 Y37 N38 S39 R41 R42 W44 R45 K48 L49 K50
• Binding residue (residue number reindexed from 1): G1 A2 N3 K4 L6 K9 F12 P21 I34 Y36 N37 S38 R40 R41 W43 R44 K47 L48 K49

Gene Ontology

Molecular Function

• 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:4v8p, PDBe:4v8p, PDBj:4v8p
• PDBsum: 4v8p
• PubMed: 22052974
• UniProt: P0DJ61|RL39_TETTS Large ribosomal subunit protein eL39 (Gene Name=RPL39)