Structure of PDB 4v68 Chain BO Binding Site BS02

Receptor Information

>4v68 Chain BO (length=122) Species: 274 (Thermus thermophilus)

MIQPQTYLEVADNTGARKIMCIRVLKGSNAKYATVGDVIVASVKEAIPRG
AVKEGDVVKAVVVRTKKEIKRPDGSAIRFDDNAAVIINNQLEPRGTRVFG
PVARELREKGFMKIVSLAPEVL

Ligand information

>4v68 Chain BA (length=2852)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucgggggcccucggccgaauccc
cagccuagccgaagcuguugggaagcagcgccagagagggugaaagcccc
guaggcgaaagguggggggauaggugaggguacccgaguaccccgugguu
cguggagccaugggggaaucugggcggaccaccgccuaaggcuaaguacu
ccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaagaacc
ccgggaggggagugaaauagagccugaaaccgugggcuuacaagcaguca
cggccccaagggguuguggcgugccuauugaagcaugagccggcgacuca
cggucgugggcgagcuuaagccguugaggcggaggcguagggaaaccgag
uccgaacagggcgcguccgcggccguggacccgaaaccgggcgagcuagc
ccuggccagggugaagcuggggugagacccaguggaggcccgaaccggug
ggggaugcaaaccccucggaugagcuggggcuaggagugaaaagcuaacc
gagcccggagauagcugguucuccccgaaaugacuuuagggucagccuca
ggcgcugacuggggccuguagagcacugauagggcuagggggcgccuacc
aaacccugucaaacuccgaagggucccagguggagccugggagugagggc
gcgagcgauaacguccgcguccgagcgcgggaacaaccgagaccgccagc
uaaggcccccaagucugggcuaagugguaaaggauguggcgccgcgaaga
cagccaggagguuggcuuagaagcagccauccuuuaaagagugcguaaua
gcucacuggucgaguggcgccgcgccgaaaaugaucggggcuuaagccca
gcgccgaagcugcgggucugggggaugaccccaggcgguaggggagcguu
cccgaugccgaugaaggccgacccgcgagggcggcuggagguaagggaag
ugcgaaugccggcaugaguaacgauaaagagggugagaaucccucucgcc
guaagcccaaggguuccuacgcaauggucgucagcguaggguuaggcggg
accuaaggugaagccgaaaggcguagccgaagggcagccgguuaauauuc
cggcccuucccgcaggugcgauggggggacgcucuaggcuagggggaccg
gagccauggacgagcccggccagaagcgcagggugggagguaggcaaauc
cgccucccaacaagcucugcgugguggggaagcccgcaaccccccgaagc
cagggagccaagaaaagccucuaagcacaaccugcgggaacccguaccgc
aaaccgacacaggugggcgggugcaagagcacucaggcgcgcgggagaac
ccucgccaaggaacucugcaaguuggccccguaacuucgggagaaggggu
gcucccuggggugaugagccccggggagccgcagugaacaggcucuggcg
acuguuuaccaaaaacacagcucucugcgaacucguaagaggagguauag
ggagcgacgcuugcccggugccggaaggucaaggggaggggugcaagccc
cgaaccgaagccccggugaacggcggccguaacuauaacgguccuaaggu
agcgaaauuccuugucggguaaguuccgaccugcacgaaaagcguaacga
ccggagcgcugucucggcgagggacccggugaaauugaacuggccgugaa
gaugcggccuacccguggcaggacgaaaagaccccguggagcuuuacugc
agccugguguuggcucuuggucgcgccugcguaggauaggugggagccug
ugaacccccgccuccgggugggggggaggcgccggugaaauccacccugg
cgcggcugggggccuaacccucggauggggggacagcgcuuggcgggcag
uuugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagguc
cccucaggcgggacggaaauccgccggagagcgcaaggguagaagggggc
cugacugcgaggccugcaagccgagcaggggcgaaagccgggccuaguga
accgguggucccguguggaagggccaucgaucaacggauaaaaguuaccc
cggggauaacaggcugaucucccccgagcguccacagcggcggggagguu
uggcaccucgaugucggcucgucgcauccuggggcugaagaaggucccaa
ggguugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacg
ucgugagacaguucggucucuauccgccacgggcgcaggaggcuugaggg
gggcucuuccuaguacgagaggaccggaagggacgcaccucugguuuccc
agcugucccuccaggggcauaagcuggguagccaugugcggaagggauaa
ccgcugaaagcaucuaagcgggaagcccgccccaagaugaggccucccac
ggcgucaagccgguaaggacccgggaagaccacccgguggaugggccggg
gguguaagcgccgcgaggcguugagccgaccggucccaaucguccgaggu
cu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v68 GTPase activation of elongation factor EF-Tu by the ribosome during decoding
• Resolution: 6.4 Å
• Binding residue (original residue number in PDB): M1 Q3 Q5 T6 Y7 I22 R23 L25 S28 N29 K31 Y32 S42 K44 K66 K67 E68 K70 R78
• Binding residue (residue number reindexed from 1): M1 Q3 Q5 T6 Y7 I22 R23 L25 S28 N29 K31 Y32 S42 K44 K66 K67 E68 K70 R78

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v68, PDBe:4v68, PDBj:4v68
• PDBsum: 4v68
• PubMed: 19229291
• UniProt: Q5SHP8|RL14_THET8 Large ribosomal subunit protein uL14 (Gene Name=rplN)