Structure of PDB 4v6u Chain BR Binding Site BS01

Receptor Information

>4v6u Chain BR (length=95) Species: 186497 (Pyrococcus furiosus DSM 3638)

QKAHSFRRKTRKKLSKHPRRRGLPPLTRFLQEFEVGQRVHIVIEPSYHKG
MPDPRFHGRTGTVVGKRGEAYIVEIKDGSKVKTLFIHPVHLRPQK

Ligand information

>4v6u Chain B1 (length=3049)

gggcuaggacgcuaagccgcccgguggauggcucggcucggggcgccgac
gaagggcguggcaagcugcgauaagccccggcgaggcgcaggcagccguc
gaaccggggauucccgaaugggaccucccgcggcuuaugccgcacuccgg
gguuuauccccggagggggaacgcggggaauugaaacaucuuaguacccg
caggaaaagaaagcaaaagcgaugccgugaguaggggcgaccgaaaacgg
cagagggcaaacugaaccccgggccgacgagguucgggggaugugggguu
guagggcccccguaugagacccucgcgggugaagccgaaguccgcuggaa
cgcggcgccggagagggugauagccccguaggcguaagcccgcagggucu
cgggggacccugaguaccgucgguuggauauccggcgggaagcugggagg
caucggcucccaacccuaaauacgucccgagaccgauagcgaacuaguac
cgugagggaaagcugaaaagcaccccgggaggggggugaaaagagccuga
aaccgggcggcgauaggagggugcggcccgaaaggaaugagccuccccga
aggaaaccgcggcgacgcgggaguacgaggggaggggaccgggguugcac
cguccgucuugaaacacggggcagggaguucgcggccguggcgagguuaa
ggggguuaagccccguagccgcagggaaaccgacaugcccgcagccgggc
uuaugcccggugaggggcggggugcgaaagcgcccggagucacggccgcg
agacccgaaaccggucgaucuagcccggggcagggugaagucccucaacc
gagggauggaggcccgcuaggggugcugaugugcaguucgcucccgugac
cccgggcuaggggugaaaggccaaucgaggccggagauagcugguucccg
ccgaaucaucccgcaggauggccuccccggagguaggcggugggguagag
cacugauuggaggugcagggggcgaaagcccccggccuccugucaaacuc
cgaacccaccgccgccguagauggggggaguaggguggcgguguaagccg
uccaccgagaggggaacaacccagaccgggguuaaggccccaaagugccg
gcuaaguguuacuccaaagggugucccgggccuuagacagcggggaggua
ggcuuagaagcagccauccuuuaaagagugcguaacagcucacccgucga
gguccggggccccgaaaauggacggggcucaagccggccgccgagacccc
ggcgcacggaccgauugguccgugaucggguaggcgggcgugccgguggc
guagaagccgggccguaagguccgguggagccgccgguaucgcggauccu
gccgggaguagcagcguagucgggugagaaucccgaccgccggaggggcc
aggguuccacggcaauggucgucagccguggguuagucgguccuaacccc
gcccguaacucggcgcgggggaaagggaaacggguuuauauucccguacc
gcggggguaggugcggcaacgcaagcccggagggugacgccucgggguag
gcggaccggccgaugaggccggcuaagcguauaagcccggggagugccgu
aauggcgagaaccgggugaaagcgcgaauggcccccccguuagggggguu
ccgccgaucccuggggcccgugaaaagcccuccgggaauuccgauccccc
gcgaccguaccgagaaccgacacaggugccccugggugagaagccuaagg
cgugucgggggaaacccggccgagggaacucggcaaacuggccccguaac
uucgggagaaggggugccugcgggugcguaacccgcaggucgcagugacu
aggggggcccgacuguuuaauaaaaacacaggucccagcuagcccgaaag
gguuuguacuggggccgacgccugcccagugccgguaugugaagcccggg
uacaaccgggugaagcaccgguaaacggcggggguaacuauaacccucuu
aagguagcgaaauuccuugucgguuaaaugccgaccugcaugaauggcgu
aacgagguccccgcuguccccggccggggcccggcgaaaccucugccugg
cgcgcaugccagggacccccggugggaagcgaagaccccauggagcuuua
cugcagccugccguugccacacggcggggggugcgcagcguaggcgggag
gcgucgaagcccggccuccgggucggguggagccguccaugagacaccgc
ccacuccccgcuguguggcuaacccccgaaaggggggacagcgguaggug
ggcaguuuggcuggggcggcacgccuccgaaaagguaucggaggcgcccu
aaggucggcucaggcgggucaggaauccgccguagagugcaagggcaaaa
gccggccugacuggacccguaacagaggcggguccagccccgaaagggug
gccuagcgaaccccugugccuccccggugggggccagggaugacagaaaa
gcuacccuggggauaacagagucgucucgggcgagagcccauaucgaccc
cgaggcuugcuaccucgcugucggcucuucccauccuggcccugcagcag
gggccaaggguggggguguucacccauuaaaggggaacgugagcuggguu
uagaccgucgugagacaggucggaugcuaucuaccggggguguuggccgc
cugaggggaaggugccccuaguacgagaggaacagggugccgcggccucu
ggucuaccgguuguccucccgggcaucgccgggcagcuacgccgcagccg
auaaggccugaaagcaucuaaggccgaagcggcccccgaaaauaggcggc
cguucccuggcgcuugggccugggcgaccggcccauugccagggacgagg
gcucggguagaagacccgguugauagggcggggauguaagcgggaagggu
caaccgacccgcuuaguccgccgccccuaaucgcccgagguccugcccc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v6u Promiscuous behaviour of archaeal ribosomal proteins: Implications for eukaryotic ribosome evolution.
• Resolution: 6.6 Å
• Binding residue (original residue number in PDB): Q3 K4 S7 R9 R10 K11 R13 K14 K15 L16 S17 R23 G24 L25 R40 H42 V44 P47 S48 H50 R57 H59 G60 R61 T62 R69 G70 E71 A72 D79 G80 S81 K82 K84 T85 F87 Q96 K97
• Binding residue (residue number reindexed from 1): Q1 K2 S5 R7 R8 K9 R11 K12 K13 L14 S15 R21 G22 L23 R38 H40 V42 P45 S46 H48 R55 H57 G58 R59 T60 R67 G68 E69 A70 D77 G78 S79 K80 K82 T83 F85 Q94 K95

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:4v6u, PDBe:4v6u, PDBj:4v6u
• PDBsum: 4v6u
• PubMed: 23222135
• UniProt: Q8U217|RL21_PYRFU Large ribosomal subunit protein eL21 (Gene Name=rpl21e)