Structure of PDB 4v7r Chain BZ Binding Site BS01

Receptor Information

>4v7r Chain BZ (length=98) Species: 4932 (Saccharomyces cerevisiae)

ESINQKLALVIKSGKYTLGYKSTVKSLRQGKSKLIIIAANTPVLRKSELE
YYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSDILTTLA

Ligand information

>4v7r Chain B1 (length=3206)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacauugggccagcau
caguuuugguggcaggauaaauccauaggaauguagcuugccucgguaag
uauuauagccugugggaauacugccagcugggacugaggacugcgacgua
agucaaggaugcuggcauaaugguuauaugccgcccgucuugaaacacgg
accaaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgc
guaaugaaagugaacguagguuggggccucgcaagaggugcacaaucgac
cgauccugaugucuucggauggauuugaguaagagcauagcuguugggac
ccgaaagauggugaacuaugccugaauagggugaagccagaggaaacucu
gguggaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggg
uauaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaa
guuucccucaggauagcagaagcucguaucaguuuuaugagguaaagcga
augauuagagguuccggggucgaaaugaccuugaccuauucucaaacuuu
aaauauguaagaaguccuuguuacuuaauugaacguggacauuugaauga
agagcuuuuagugggccauuuuugguaagcagaacuggcgaugcgggaug
aaccgaacguagaguuaaggugccggaauacacgcucaucagacaccaca
aaagguguuaguucaucuagacagccggacgguggccauggaagucggaa
uccgcuaaggaguguguaacaacucaccggccgaaugaacuagcccugaa
aauggauggcgcucaagcguguuaccuauacucuaccgucaggguugaua
ugaugcccugacgaguaggcaggcguggaggucagugacgaagccuagac
cguaaggucgggucgaacggccucuagugcagaucuuggugguaguagca
aauauucaaaugagaacuuugaagacugaaguggggaaagguuccacguc
aacagcaguuggacguggguuagucgauccuaagagauggggaagcuccg
uuucaaaggccugauuuuaugcaggccaccaucgaaagggaauccgguua
agauuccggaaccuggauauggauucuucacgguaacguaacugaaugug
gagacgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcu
uaucaccccggaauugguuuauccggagauggggucuuauggcuggaaga
ggccagcaccuuugcuggcuccggugcgcuugugacggcccgugaaaauc
cacaggaaggaauaguuuucaugccaggucguacugauaaccgcagcagg
ucuccaaggugaacagccucuaguugauagaauaauguagauaagggaag
ucggcaaaauagauccguaacuucgggauaaggauuggcucuaagggucg
gaacgaucaacuuagaacugguacggacaaggggaaucugacugucuaau
uaaaacauagcauugcgauggucagaaagugauguugacgcaaugugauu
ucugcccagugcucugaaugucaaagugaagaaauucaaccaagcgcggg
uaaacggcgggaguaacuaugacucucuuaagguagccaaaugccucguc
aucuaauuagugacgcgcaugaauggauuaacgagauucccacugucccu
aucuacuaucuagcgaaaccacagccaagggaacgggcuuggcagaauca
gcggggaaagaagacccuguugagcuugacucuaguuugacauugugaag
agacauagaggguguagaauaagugggagcuucggcgccagugaaauacc
acuaccuuuauaguuucuuuacuuauucaaugaagcggagcuggaauuca
uuuuccacguucuagcauucaaggucccauucggggcugauccggguuga
agacauugucagguggggaguuuggcuggggcggcacaucuguuaaacga
uaacgcagauguccuaaggggggcucauggagaacagaaaucuccaguag
aacaaaaggguaaaagcccccuugauuuugauuuucagugugaauacaaa
ccaugaaaguguggccuaucgauccuuuagucccucggaauuugaggcua
gaggugccagaaaaguuaccacagggauaacuggcuuguggcagucaagc
guucauagcgacauugcuuuuugauucuucgaugucggcucuuccuauca
uaccgaagcagaauucgguaagcguuggauuguucacccacuaauaggga
acgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacug
augaauguuaccgcaauaguaauugaacuuaguacgagaggaacaguuca
uucggauaauugguuuuugcggcugucugaucaggcauugccgcgaagcu
accauccgcuggauuauggcugaacgccucuaagucagaauccaugcuag
aacgcggugauuucuuugcuccacacaauauagauggauacgaauaaggc
guccuuguggcgucgcugaaccauagcaggcuagcaacggugcacuuggc
ggaaaggccuugggugcuugcuggcgaauugcaaugucauuuugcguggg
gauaaaucauuuguauacgacuuagauguacaacgggguauuguaagcag
uagaguagccuuguuguuacgaucugcugagauuaagccuuuguugucug
auuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v7r Crystal structure of the eukaryotic ribosome.
• Resolution: 4.0 Å
• Binding residue (original residue number in PDB): G26 Y27 K28 S29 V50 F85 R86 V87
• Binding residue (residue number reindexed from 1): G19 Y20 K21 S22 V43 F78 R79 V80

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0030627 pre-mRNA 5'-splice site binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0048025 negative regulation of mRNA splicing, via spliceosome

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v7r, PDBe:4v7r, PDBj:4v7r
• PDBsum: 4v7r
• PubMed: 21109664
• UniProt: P14120|RL30_YEAST Large ribosomal subunit protein eL30 (Gene Name=RPL30)