Structure of PDB 6vmi Chain 4 Binding Site BS01

Receptor Information

>6vmi Chain 4 (length=38) Species: 9606 (Homo sapiens)

FKNKTVLKKRCKDCYLVKRRGRWYVYCKTHPRHKQRQM

Ligand information

>6vmi Chain A (length=1527)

gcuaaaccuagccccaaacccacuccaccuuacuaccagacaaccuuagc
caaaccauuuacccaaauaaaguauaggcgauagaaauugaaaccuggcg
caauagauauaguaccgcaagggaaagaugaaaaauuauaaccaagcaua
auauagcaaggacuaaccccuauaccuucugcauaaugaauuaacuagaa
auaacuuugcaaggagagccaaagcuaagacccccgaaaccagacgagcu
accuaagaacagcuaaaagagcacacccgucuauguagcaaaauaguggg
aagauuuauagguagaggcgacaaaccuaccgagccuggugauagcuggu
uguccaagauagaaucuuaguucaacuuuaaauuugcccacagaacccuc
uaaauccccuuguaaauuuaacuguuaguccaaagaggaacagcucuuug
gacacuaggaaaaaaccuuguagagagaguaaaaaauuuaacacccauag
uaggccuaaaagcagccaccaauuaagaaagcguucaagcucaacaccca
cuaccuaaaaaaucccaaacauauaacugaacuccucacacccaauugga
ccaaucuaucacccuauagaagaacuaauguuaguauaaguaacaugaaa
acauucuccuccgcauaagccugcgucagauuaaaacacugaacugacaa
uuaacagcccaauaucuacaaucaaccaacaagucauuauuacccucacu
gucaacccaacacaggcaugcucauaaggaaagguuaaaaaaaguaaaag
gaacucggcaaaucuuaccccgccuguuuaccaaaaacaucaccucuagc
aucaccaguauuagaggcaccgccugcccagugacacauguuuaacggcc
gcgguacccuaaccgugcaaagguagcauaaucacuuguuccuuaaauag
ggaccuguaugaauggcuccacgaggguucagcugucucuuacuuuuaac
cagugaaauugaccugcccgugaagaggcgggcauaacacagcaagacga
gaagacccuauggagcuuuaauuuauuaaugcaaacaguauaccaaaccu
gcauuaaaaauuucgguuggggcgaccucggagcagaacccaaccuccga
gcaguacaugcuaagacuucaccagucaaagcgaaccucaauugauccaa
uaacuugaccaacggaacaaguuacccuagggauaacagcgcaauccuau
ucuagaguccauaucaacaauaggguuuacgaccucgauguuggaucagg
acaucccgauggugcagccgcuauuaaagguucguuuguucaacgauuaa
aguccuacgugaucugaguucagaccggaguaauccaggucgguuucuau
cuacuuucaaauuccucccuguacgaaaggacaagagaaauaaggccuac
uucacaaagcgccuucccccguaaaugauaucaucucaacuuaguauuau
acccacacccacccaagaacaggguuu

<<<.......<<<<....................................
.<......>.........<.....<<.....>>....>........>>.>
>.............<<....>>......................>>>...
........<<<.......>>>...<.<........>.>.<<<<<<.....
....<<<.<<..<<....>>...>>.>>>...<<.<..<<<<<.<.....
<<<<<.<<<..<<.......>>...<<<..<<<<........>>>>.>>>
....>>>.>>>>>...<<.......>>......>.>>>>...>..>.>>.
.<<<<<<....<<<<....>>>><<<.<<<<<<<<<<.....<<......
....>>.....>>>>>>>>>>..>>>.<<<<<<<<<<......>>>>>>>
>>>...<<<......>>>....<<<.<<<...<..............<..
...<<.........>>.....>.......<<<......>>>.........
...........................>...>>>>>>........>>>>>
>...<<<<<......>>>>>.........>>>>>><......<<..<<<.
...>>><<<<..<<<<........<<<<<..............>>>>>..
....<<<...<<<<.......................>>>>.......>>
>.....<<......>>.>>>>.....>>>>..<<<<...<<<<<<<<.<<
................<<<<<<..<<<.........>>>...<<<<<<..
...........>>>>>>....<<<.<<<..<<<<<....>>>..>>>>><
<<<<<......>>>>>>........<...........<<<<<<.....>>
>>>>.....>....>>>....>>.>>>>........>>.>>>>>>>>>>>
>.>>.....>.....<<<<<........>>>>>.......<<..<<<.<<
......<<<<.<<<<<<..<<<<..<<<<<<<<.....<..>.......>
>>>>>>>.>>>>..<<<<.....>>>><<<<<<...........>>>>>>
..<......<<<..<<<<.....>>>>..>>>.....>.........<<<
....>>>............>>>>..>>>>>>.......<<<...<<<<<<
<...<<.......>>...>>>>>>>....>>.>.......<.<<<.<<<<
<<..<<.<<<<<<......>>>>>>...>>.<<<<<.....>>>>>....
.>>>>>..>...>>>..>....<<<<<<<....>>>.>>>>....>>..>
>>.>>...<.<<<.<<<.................>>>.>>><<<<<...<
<<....>>>.>>>>>......<<<................>>>......>
..........<<<<.......>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6vmi Structures of the human mitochondrial ribosome bound to EF-G1 reveal distinct features of mitochondrial translation elongation.
• Resolution: 2.96 Å
• Binding residue (original residue number in PDB): K67 N68 K69 T70 V71 K73 R75 L81 K83 R84 R85 G86 W88 Y91 R97 K99 Q102 M103
• Binding residue (residue number reindexed from 1): K2 N3 K4 T5 V6 K8 R10 L16 K18 R19 R20 G21 W23 Y26 R32 K34 Q37 M38

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0006412 translation
• GO:0032543 mitochondrial translation

Cellular Component

• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:0016604 nuclear body
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6vmi, PDBe:6vmi, PDBj:6vmi
• PDBsum: 6vmi
• PubMed: 32737313
• UniProt: Q9P0J6|RM36_HUMAN Large ribosomal subunit protein bL36m (Gene Name=MRPL36)