Structure of PDB 8bqx Chain x Binding Site BS01

Receptor Information

>8bqx Chain x (length=367) Species: 4932 (Saccharomyces cerevisiae)

YCSGLQCGRETSSQMKCPVCLKQGIVSIFCDTSCYENNYKAHKALHNAKD
GLEGAYDPFPKFKYSGKVKASYPLTPRRYVPEDIPKPDWAANGLPVSEQR
NDRLNNIPIYKKDQIKKIRKACMLGREVLDIAAAHVRPGITTDELDEIVH
NETIKRGAYPSPLNYYNFPKSLCTSVNEVICHGVPDKTVLKEGDIVNLDV
SLYYQGYHADLNETYYVGENISKEALNTTETSRECLKLAIKMCKPGTTFQ
ELGDHIEKHATENKCSVVRTYCGHGVGEFFHCSPNIPHYAKNRTPGVMKP
GMVFTIEPMINEGTWKDMTWPDDWTSTTQDGKLSAQFEHTLLVTEHGVEI
LTARNKKSPGGPRQRIK

Ligand information

>8bqx Chain BQ (length=3301)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugua
uuucacuggccagcaucaguuuugguggcaggauaaauccauaggaaugu
agcuugccucgguaaguauuauagccugugggaauacugccagcugggac
ugaggacugcgacguaagucaaggaugcuggcauaaugguuauaugccgc
ccgucuugaaacacggaccaaggagucuaacgucuaugcgaguguuuggg
uguaaaacccauacgcguaaugaaagugaacguagguuggggccucgcaa
gaggugcacaaucgaccgauccugaugucuucggauggauuugaguaaga
gcauagcuguugggacccgaaagauggugaacuaugccugaauaggguga
agccagaggaaacucugguggaggcucguagcgguucugacgugcaaauc
gaucgucgaauuuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguuccugccgaaguuucccucaggauagcagaagcucguaucaguu
uuaugagguaaagcgaaugauuagagguuccggggucgaaaugaccuuga
ccuauucucaaacuuuaaauauguaagaaguccuuguuacuuaauugaac
guggacauuugaaugaagagcuuuuagugggccauuuuugguaagcagaa
cuggcgaugcgggaugaaccgaacguagaguuaaggugccggaauacacg
cucaucagacaccacaaaagguguuaguucaucuagacagccggacggug
gccauggaagucggaauccgcuaaggaguguguaacaacucaccggccga
augaacuagcccugaaaauggauggcgcucaagcguguuaccuauacucu
accgucaggguugauaugaugcccugacgaguaggcaggcguggagguca
gugacgaagccuagaccguaaggucgggucgaacggccucuagugcagau
cuuggugguaguagcaaauauucaaaugagaacuuugaagacugaagugg
ggaaagguuccacgucaacagcaguuggacguggguuagucgauccuaag
agauggggaagcuccguuucaaaggccugauuuuaugcaggccaccaucg
aaagggaauccgguuaagauuccggaaccuggauauggauucuucacggu
aacguaacugaauguggagacgucggcgcgagcccugggaggaguuaucu
uuucuucuuaacagcuuaucaccccggaauugguuuauccggagaugggg
ucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgcuugug
acggcccgugaaaauccacaggaaggaauaguuuucaugccaggucguac
ugauaaccgcagcaggucuccaaggugaacagccucuaguugauagaaua
auguagauaagggaagucggcaaaauagauccguaacuucgggauaagga
uuggcucuaagggucggguagugagagccuuggucagacgcagcgggcgu
gcuuguggacugcuugguggggcuugcucugcuaggcggacuacuugcgu
gccuuguuguagacggccuuggucuugcuacaauuaacgaucaacuuaga
acugguacggacaaggggaaucugacugucuaauuaaaacauagcauugc
gauggucagaaagugauguugacgcaaugugauuucugcccagugcucug
aaugucaaagugaagaaauucaaccaagcgcggguaaacggcgggaguaa
cuaugacucucuuaagguagccaaaugccucgucaucuaauuagugacgc
gcaugaauggauuaacgagauucccacugucccuaucuacuaucuagcga
aaccacagccaagggaacgggcuuggcagaaucagcggggaaagaagacc
cuguugagcuugacucuaguuugacauugugaagagacauagagggcuac
cuuuauaguuucuuuacuuauucaaugaagcggagcuggaauucauuuuc
cacguucuagcauucaaggucccauucggggcugauccggguugaagaca
uugucagguggggaguuuggcuggggcggcacaucuguuaaacgauaacg
cagauguccuaaggggggcucauggagaacagaaaucuccaguagaacaa
aaggguaaaagcccccuugauuuugauuuucagugugaauacaaaccaug
aaaguguggccuaucgauccuuuagucccucggaauuugaggcuagaggu
gccagaaaaguuaccacagggauaacuggcuuguggcagucaagcguuca
uagcgacauugcuuuuugauucuucgaugucggcucuuccuaucauaccg
aagcagaauucgguaagcguuggauuguucacccacuaauagggaacgug
agcuggguuuagaccgucgugagacagguuaguuuuacccuacugaugaa
uguuaccgcaauaguaauugaacuuaguacgagaggaacaguucauucgg
auaauugguuuuugcggcugucugaucaggcauugccgcgaagcuaccau
ccgcuggauuauggcugaacgccucuaagucagaauccaugcuagaacgc
ggugauuucuuugcuccacacaauauagauggauacgaauaaggcguccu
uguggcgucgcugaaccauagcaggcuagcaacggugcacuuggcggaaa
ggccuugggugcuugcuggcgaauugcaaugucauuuugcguggggauaa
aucauuuguauacgacuuagauguacaacgggguauuguaagcaguagag
uagccuuguuguuacgaucugcugagauuaagccuuuguugucugauuug
u

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8bqx The dynamic architecture of Map1- and NatB-ribosome complexes coordinates the sequential modifications of nascent polypeptide chains.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): F79 P80 K81 F82 K83 Y84 K243 M338 T339 W340 P341 Q384 I386 K387
• Binding residue (residue number reindexed from 1): F59 P60 K61 F62 K63 Y64 K223 M318 T319 W320 P321 Q364 I366 K367

Enzymatic activity

• Enzyme Commision number: 3.4.11.18: methionyl aminopeptidase.

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0004177 aminopeptidase activity
• GO:0004239 initiator methionyl aminopeptidase activity
• GO:0008270 zinc ion binding
• GO:0046872 metal ion binding
• GO:0070006 metalloaminopeptidase activity

Biological Process

• GO:0006508 proteolysis
• GO:0010629 negative regulation of gene expression
• GO:0016485 protein processing

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0010494 cytoplasmic stress granule
• GO:0022626 cytosolic ribosome

External links

• PDB: RCSB:8bqx, PDBe:8bqx, PDBj:8bqx
• PDBsum: 8bqx
• PubMed: 37079644
• UniProt: Q01662|MAP1_YEAST Methionine aminopeptidase 1 (Gene Name=MAP1)