Structure of PDB 5mmm Chain G Binding Site BS01

Receptor Information

>5mmm Chain G (length=178) Species: 3562 (Spinacia oleracea)

KESRIGKQPITVPANVAIAMEGQDLKVKGPLGELSITYPREVLVEKQESG
FLRVRKAVETRRANQMHGLFRTLTDNMVVGVSKGFEKKLQLVGVGYRATV
EGKDLILSLGFSHPVRMAIPDELQVKVEENTKVTVSGRDKSVVGQFAATI
RSWRPPEPYKGKGVRYVDEVVRRKEGKA

Ligand information

>5mmm Chain A (length=2798)

ucaaacgaggaaaggcuuacgguggauaccuaggcacccagagacgagga
agggcguauuaaucgacgaaaugcuucggggaguugaaaauaagcagaga
uccggagauucccgaauaggucaaccuuucgaacuucugcugaauccaug
ggcaggcaagagacaaccuggcgaacugaaacaucuuaguagccagagga
aaagaaagcaaaagcgauucccguaguagcggcgagcgaaaugggagcag
ccuaaaccgugaaaacgggguugugggagagcaauacaagcgucgugcug
cuaggcgaaucaguggagugcggaacccuagauggugaaaguccaguagc
cgaaagcaucacuagcuuaugcucugacccgaguagcauggggcacgugg
aaucccgugugaaucagcaaggaccaccuugcaaggcuaaauacuccugg
gugaccgauagcgaaguaguaccgugagggaagggugaaaagaaccccca
ucggggagugaaaagaacaugaaaccguaagcucucaagcagugggaggg
ggaccagacccugaccgcgugccuguugaagaaugagccggcgacucaua
ggcaguggcuugguuaagggaacccaccggagccguagcgaaagcgaguc
uucauagggcaauugucacugcuuauggacccgaaccugggugaucuauc
caugaccaggaugaagcuugggugaaacuaaguggagguccgaaccgacu
gauguugaagaaucagcggaugaguugugguuaggggugaaaugccacuc
gaacccagagcuagcugguucuccccgaaaugcguugaggcgcagcaguu
gacuggacaucuagggguaaagcacuguuucggugcgggccgccgguacc
aaaucgaggcaaacucugaauacuagauaugaccuccaaauaacaggggu
caaggucggccagugagacgaugggggauaagcuucaucgucgagaggga
aacagcccggaucaccagcuaaggccccuaaaugaccgcucagugauaaa
ggagguaggggugcagagacagccaggagguuugccuagaagcagccacc
cuugaaagagugcguaauagcucacugaucgagcgcucuugcgccgaaga
ugaacggggcuaagcggucugccgaagcugugggauguaaaaaaacaucg
guaggggagcguuccguguuagggagaaacgcgugcgugagccgcguugg
acgaagcggaagcgagaaugucggcuugaguaacgcaaacauuggugaga
auccaaugccccgaaaaccuaaggguuccuccgcaagguucguccacgga
gggugagucagggccuaagaucaggccgaaaggcguagucgauggacaac
aggugaauauuccuguacuaccccuuguuggucccgagggacggaggagg
cuagguuagccgaaagaugguuaucgguucaaggacgcaaggugacccug
uuuuucaggguaagaagggguagagaaaaugccucgagccaauguucgag
uaccaggcgcuacggcgcugaaguaaccgaugccauacucccaggaaaag
cucgaacgaccuucaacaaaaggguaccuguacccgaaaccgacacaggu
agguagguagagaauaccuaggggcgcgagacaacucucucuaaggaacu
cggcaaaauagccccguaacuucgggagaaggggugcccccucggggguc
gaagugaccaggcccgggcgacuguuuaccaaaaacacaggucuccgcaa
agucguaagaccauguaugggggcugacgccugcccagugccggaagguc
aaggaaguuggugaccugaugacaggggagccggcgaccgaagccccggu
gaacggcggccguaacuauaacgguccuaagguagcgaaauuccuugucg
gguaaguuccgacccgcacgaaaggcguaacgaucugggcacugucucgg
agagaggcucggugaaauagacaugucugugaagaugcggacuaccugca
ccuggacagaaagacccuaugaagcuuuacuguucccugggauuggcuuu
gggcuuuuccugcgcagcuuagguggaaggcgaagaaggcccccuuccgg
gggggcccgagccaucagugagauaccacucuggaagagcuagaauucua
accuugugucaggaccuacgggccaagggacauucucagguagacaguuu
cuauggggcguaggccucccaaaagguaacggaggcgugcaaagguuucc
ucgggccggacggagauuggcccucgagugcaaaggcagaagggagcuug
acugcaagacccacccgucgagcagggacgaaagucggccuuagugaucc
gacggugccgaguggaagggccgucgcucaacggauaaaaguuacucuag
ggauaacaggcugaucuuccccaagaguucacaucgacgggaagguuugg
caccucgaugucggcucuucgccaccuggggcuguaguauguuccaaggg
uugggcuguucgcccauuaaagcgguacgugagcuggguucagaacgucg
ugagacaguucgguccauauccggugugggcguuagagcauugagaggac
cuuucccuaguacgagaggaccgggaaggacgcaccucugguguaccagu
uaucgugcccacgguaaacgcuggguagccaagugcggagcggauaacug
cugaaagcaucuaaguaguaagcccaccccaagaugagugcucuccua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5mmm The complete structure of the chloroplast 70S ribosome in complex with translation factor pY.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): R42 I43 R99 Q103 M104 G106 L107 T110 K125 S150 H151 G182 Q183 A186 Y197 K198 K200 K212 K215
• Binding residue (residue number reindexed from 1): R4 I5 R61 Q65 M66 G68 L69 T72 K87 S112 H113 G144 Q145 A148 Y159 K160 K162 K174 K177

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0009507 chloroplast
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5mmm, PDBe:5mmm, PDBj:5mmm
• PDBsum: 5mmm
• PubMed: 28007896
• UniProt: P82193|RK6_SPIOL Large ribosomal subunit protein uL6c (Gene Name=RPL6)