Structure of PDB 6pvk Chain Y Binding Site BS01

Receptor Information

>6pvk Chain Y (length=63) Species: 1423 (Bacillus subtilis)

MKANEIRDLTTAEIEQKVKSLKEELFNLRFQLATGQLENTARIREVRKAI
ARMKTVIREREIA

Ligand information

>6pvk Chain A (length=2169)

uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgauga
aggacgggacgaacaccgauaugcuucggggagcuguaagcaagcuuuga
uccggagauuuccgaauggggaaacccaccacucguaauggagugguauc
cauaucugaauucauaggauaugagaaggcagacccggggaacugaaaca
ucuaaguacccggaggaagagaaagcaaaugcgauucccugaguagcggc
gagcgaaacgggaucagcccaaaccaagaggcuugccucuugggguugua
ggacacucuguacggaguuacaaaggaacgagguagaugaagaggucugg
aaaggcccgccauaggagguaacagcccuguagucaaaacuucguucucu
ccugaguggauccugaguacggcggaacaaauuccgucggaauccgggag
gaccaucucccaaggcuaaauacucccuagugaccgauagugaaccagua
ccgugagggaaaggugaaaagcaccccggaaggggagugaaagagauccu
gaaaccgugugccuacaaguagucagagcccguuaacgggugauggcgug
ccuuuuguagaaugaaccggcgaguuacgaucucgugcaagguuaagcag
aagaugcggagccgcagcgaaagcgagucugaauagggcgcaugaguacg
uggucguagacccgaaaccaggugaucuacccauguccagggugaaguuc
agguaacacugaauggaggcccgaacccacgcacguugaaaagugcgggg
augagguguggguaggggugaaaugccaaucgaaccuggagauagcuggu
ucucuccgaaauagcuuuaggcuagccucaagguaagagucuugaugcca
augacuuauccuugggagucagacugcgagugauaauccguagucgaaag
ggaaacagcccagaccgccagcuaaggucccaaaguauacguuaagugga
aaaggauguggaguugcuuagacgagugacucugcgccgacggggcuaaa
cguaucaccgaagcugcggacuguucgaacagugguaggagagcguucua
agggcugugaagccagaccggaaggacugguggagcgcuuagaagugaga
augccgguaugaguagcgaaagaggggugagaauccccuccaccgaaugc
cuaagguuuccugaggaaggcucguccgcucaggguuagucgggaccuaa
gccgaggccgaaaggcguaggcgauggacaacagguugauauuccuguac
caccuccucaccauuugagcaauggggggacgcaggaggauaggguaagc
gcgguauuggauauccgcguccaagcaguuaggcugggaaauaggcaaau
ccguuucccauaaggcugagcugugauggcgagcgaaaguagcgaaguuc
cugauuccacacugccaagaaaagccucuagcgaggugagaggugcccgu
accgcaaaccgacacagguaggcgaggagagaauccuaaggugaucgaga
gaacucucguuaaggaacucggcaaaaugaccccguaacuucgggagaag
gggugcucuguuagggugcaagcccgagagagccgcagugaauaggccca
ggcgacuguuuaaacacaggucucugcgaagccguaaggcgaaguauagg
ggcugacgccucgcaacgaucugggcacugucucaacgagagacucggug
aaauuauaguaccugugaagaugcagguuacccgcgacaggacggaaaga
ccccguggagcuuuacugcagccugauauaacccgccgcccuuaucgggc
ggggagacagugucaggugggcaugguuccgcauggauccgucgcgggcg
caggaaauuugagaggagcuguccuuaguacgagaggaccgggauggacg
caccgcugguguaccaguuguucugccaagggcaucgcuggguagcuaug
ugcggacgggauaagugcugaaagcaucuaagcaugaagccccccucaag
augagauuucccauuccgcaaggaaguaagaucccugaaagaugaucagg
uugauaggucugagguggaaguguggcgacacauggagcugacagauacu
aaucgaucgaggacuuaac

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6pvk Structural consequences of the interaction of RbgA with a 50S ribosomal subunit assembly intermediate.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): K2 N39 T40 A41 R44 R47 K48 A51 R52 T55 R58
• Binding residue (residue number reindexed from 1): K2 N39 T40 A41 R44 R47 K48 A51 R52 T55 R58

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:6pvk, PDBe:6pvk, PDBj:6pvk
• PDBsum: 6pvk
• PubMed: 31665744
• UniProt: P12873|RL29_BACSU Large ribosomal subunit protein uL29 (Gene Name=rpmC)