Structure of PDB 6yws Chain C Binding Site BS01

Receptor Information

>6yws Chain C (length=307) Species: 367110 (Neurospora crassa OR74A)

VKYGWSTLPKRSRPTRFNQVTQGLPAPTSGPAAALKRREKTTPLRTGVLA
VKKGMTVFMGRTGARIPCTVLQLDRVQVVANKTRAKNGYWAVQVGLGERR
AENVGAPQLGYYEAKGIPPKQTLAEFKVRNQDGLLPVGVQLFPDWFHVGQ
VVDVRGITRGMGFAGGMKRHGFAGQEASHGNSLNHRTIGSVGGSQGSGSR
VLPGKKMPGRMGAQQHTVQNLPILMVDNELGIVVVKGAVAGHKGAVVKVQ
DAVKKAPPPEEFVEATKQLLNERFPDAEEKLQAARKLHLELKEARRQGLI
DSLIKNG

Ligand information

>6yws Chain A (length=2820)

guaauggauauaaagcuuauguuuauauauauauauaaguauauaaagag
acuacuaccaauagcuacacuauguauuaaggagaguauaacuuaauuua
uguuuaugauagagguuaucaacauaugaacucuuagagaaauuacuuaa
uaaacgaagugaauugaaauaucuuauuaacuucaggaaaagaaaucaaa
cgagauucuaugauuagugugaacgaaaauagagcagccuauuaaaauaa
guaaaauggcuuuaaagcuguuugaauauuguggggaaccuuccucaaag
gcuaaauauaauacaugaguuacagagaaaaguaccgugagggaaagcuu
ugaaauaguaguuuuauaagcagcucaagcaauaagaaagcgagagcgua
ccuuuugcauaaugggucaccaaguuaauuuuagaugcgagcgaauuaga
ugugcauaguuaaaccgaucauuaaaauaaugaauagugucuaaaguuag
acccgaagccuggugaucuuacuauagucaggacuauaaagguccgaacg
gguuaucguugcaaagauauccgaagaacuaugguaagcgagugaaagac
aacacugacuaggauagcugguuuucugcgaaaccuauaauaguaggcaa
uuuaaguaacaucuuaguagguacagaacuuaaucucagacaagauguag
auuuucauaccuagguaugaaaugcauuuuuuuuuguauacaucggggga
uauuuuaucggugaguauguagacucggaaugacaaagaugaaucuugaa
uaaucagacauagaaugauaagguuguaugucaaaagggaaacagcccag
aacaagaguuaagguuccaaaauuauuauuaagugaaauaaagaaaguuu
uuauauaagucgacaagaagaugggcuuggaagcagccauaauuuaaaga
ucucguaacagagcacuuguuaaaucuuaaaagcaucgaaaauuuaacgg
aucuaaauaauauaccgaaaccuuguccauauguaacauuaguaauaaua
uuaauguuauuugaugggguagcagaacguugagugaaucuuagauuuuu
uuuuuauaacuaaauauagaugauaacucaagugagaauggugacaugag
uaacaaaaaagaguuuaagguaccuaaaagguaucuuagagucucgccua
aagcuuauggcuacgucaaguaacggccucuaaguuuauaaucugaagau
uaugacgaugagaaaacuuugguaccaacauuuaaaagugaaaauugugc
aggaaggauaaaccguaccuagaaucugaaacaaguaagcuaguagagaa
uacgaaggcgugaaugagauaacaaucauaaaggaacucggcaaacuaac
uaccguaacuuagggauaaggagagcucauuagucucgaacgaguaaaaa
ggaagaagcauggaauauuguuguacgacuguuuaauuaaaacaaagcac
uuugcaaaaagacgauaagucuaaguauugagugugauuucugcccgaug
ccggcugguuaacgaauuuucuaaauugaaaaaaaauuugguuucagagg
aacccccgguuaauggcggccgguccuaagguagcgaaaugccuuggccg
uuaaaugcggucuugcaugaaugauguaacgauacaacagcugucucuau
gauugacucagugaaauuggaauaacugugcagauacaguuuaccucuag
uuagacgagaagacccuaugcagcuuuacuguuacuaauuauugaauacg
auucugaaaauuuccaguguaaaagguaaucgauaagauauaauugaaac
accuuuauuuuucuaucguauuauuaaaccuuaaauuaaggaacaauugu
uagaagacaguuuaugcggggcacaggccccauaaagaguaaaugggugu
gucuaaaauguuugcaauuuuuuauaguauauaucaaaucaucuuuaugc
uauucauagaccuuggguacaguauaaaaauuauauauguauuaauuuac
auauauuuuuucuaagaaauuagguaagauuuuguuuauagagaaauuag
auguaaaaaaaaaaucuuaugagggcggauccgcuucuaauauuuuuuug
uaguuauuauuauaauaauaaucauguuuauuacuuaaaaagcuuaaugg
cuuaaucuugccuuacuguuugauuaacaacaaaucuuacagucgcguaa
gcggggcauaggaucacaagauacaaaaaggaaagaucuuggauuuuugg
aaaagcuacgcuagggauaacaggcuaauuugcgcaagaguguacaaaau
gagugcgcgguuuggcaccucggcuugacuaauccucauggaugcagaaa
cuauguaggguacgacuguucgucgauuaaaaaguuacaugagcuggguu
aaauacgucgugagacaguaugguuucuaucuucuagagggaauuagaau
auaauaaggauuaaccuuuguacgaaaggaacaugggguacuauuguuaa
caguuuuauuaaccucugguuuaccuguuguuuaugugccuuagggaugu
uaccgucacuugaguaaauacaauagcauaagcauggcaggaaagcuaag
uuagucaaaaauaagugcugaaagcauauaggcacgaaauuuaccuuaag
auauuucuuaaauauacguaagaaaauauuacguuaauaggcuuaguuug
uaauaaucuagagauuuuaaggaacuaaguacuaauuuuauaaaaaacug
aaugauuaauauaucuuaca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6yws Analysis of translating mitoribosome reveals functional characteristics of translation in mitochondria of fungi.
• Resolution: 2.74 Å
• Binding residue (original residue number in PDB): V63 K64 G66 R73 R75 R78 F79 Q81 T83 Q84 S91 G92 P93 A94 R99 R100 T103 K114 M117 T118 V119 F120 G122 R123 T124 G125 A126 R127 P129 R146 A147 K148 N149 Y151 Q155 R161 R162 N165 G167 A168 P169 Q170 G172 Y173 K177 L185 E187 K189 G211 R217 T220 R221 G222 M223 G224 F225 G227 K230 R231 F234 A235 G236 Q237 A239 S240 H241 G242 N243 S244 L245 N246 H247 R248 I250 G251 S252 V253 G254 G255 S256 Q257 G258 S259 G260 S261 R262 V263 K267 M269 P270 R272 Q277 H278 T279 Q281 N282 P284 L286 K298 G299 A300 V301 A302 H304 A307 K316 K317 R347 H350 L351 K354 R357
• Binding residue (residue number reindexed from 1): V1 K2 G4 R11 R13 R16 F17 Q19 T21 Q22 S29 G30 P31 A32 R37 R38 T41 K52 M55 T56 V57 F58 G60 R61 T62 G63 A64 R65 P67 R84 A85 K86 N87 Y89 Q93 R99 R100 N103 G105 A106 P107 Q108 G110 Y111 K115 L123 E125 K127 G149 R155 T158 R159 G160 M161 G162 F163 G165 K168 R169 F172 A173 G174 Q175 A177 S178 H179 G180 N181 S182 L183 N184 H185 R186 I188 G189 S190 V191 G192 G193 S194 Q195 G196 S197 G198 S199 R200 V201 K205 M207 P208 R210 Q215 H216 T217 Q219 N220 P222 L224 K236 G237 A238 V239 A240 H242 A245 K254 K255 R285 H288 L289 K292 R295

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005739 mitochondrion
• GO:0005762 mitochondrial large ribosomal subunit
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6yws, PDBe:6yws, PDBj:6yws
• PDBsum: 6yws
• PubMed: 33056988
• UniProt: Q1K8T6|RM09_NEUCR Large ribosomal subunit protein uL3m (Gene Name=mrpl9)