Structure of PDB 4v7e Chain CB Binding Site BS01

Receptor Information

>4v7e Chain CB (length=389) Species: 4565 (Triticum aestivum)

MSHRKFEHPRHGSLGFLPRKRCSRHRGKVKSFPKDDQQKPCHLTAFLGYK
AGMTHIVREVEKPGSKLHKKETCEAVTIIETPPLVIVGLVAYVKTPRGLR
TLNSVWAQHLSEDVRRRFYKNWCKSKKKAFTKYALKYDSDAGKKEIQLQL
EKMKKYATIVRVIAHTQIRKMKGLKQKKAHLMEIQVNGGTIADKVDYGYK
FFEKEVPVEAVFQKDEMVDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLR
KVACIGAWHPARVSYTVARAGQNGYHHRTEMNKKIYKMGKSGQESHEACT
EFDRTEKDITPMGGFPHYGVVKGDYLMIKGCCVGPKKRVVTLRQSLLKQT
SRLALEEIKLKFIDTSSKFGHGRFQTTDEKQKFYGRLKA

Ligand information

>4v7e Chain Aa (length=3391)

gcgcgaccccaggucaggcgggacuaccgcugaguuuaagcauauaaaua
agcggaggagaagaaacuuacaaggauuccccuaguaacggcgagcgaac
cgggagcagcccagcuugagaaucgggcggcugugccguccgaauuguag
ucuggagaggcguccucagcgacggaccgggcccaaguccccuggaaagg
ggcgccugggagggugagagccccguccggcccggacccugucgccccac
gaggcgccgucaacgagucggguuguuugggaaugcagcccaaaucgggc
gguagacuccguccaaggcuaaauacaggcgagagaccgauagcgaacaa
guaccgcgagggaaagaugaaaaggacuuugaaaagagagucaaagagug
cuugaaauugccgggagggaagcggaugggggccggcgaugcgccccggc
cguaugcggaacggcucuugcugguccgccgcucggcucggggcguggac
uguugucggccgcgccggcggccaaagcccgggggcuccgcgcccccggc
agccgucgucggcacggccgguacccgcgcgccgaaaggcgugccccucg
gggcacugcgcugcaacgcccugcgggcuccccauccgacccgucuugaa
acacggaccaaggagucugacaugcgugcgagucgacggguucugaaacc
ugggaugcgcaaggaagcugacgagcgggaggcccucacgggccgcaccg
cuggccgacccugaucuucugugaaggguucgaguuggagcacgccuguc
gggacccgaaagauggugaacuaugccugagcggggcgaagccagaggaa
acucugguggaggcucgaagcgauacugacgugcaaaucguucgucugac
uuggguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccu
ccgaaguuucccucaggauagcuggagcccauuacgaguucuaucaggua
aagccaaugauuagaggcauuggggacgcaacguccucgaccuauucuca
aacuuuaaauagguaggauggcgcggcugcuucggugagccgugccaugg
aaucgggugcuccaagugggccauuuuugguaagcagaacuggcgaugcg
ggaugaaccggaagccggguuacggugcccaacugcgcgcuaaccuagaa
cccacaaaggguguuggucgauuaagacagcaggacgguggucauggaag
ucgaaauccgcuaaggaguguguaacaacucaccugccgaaucaacuagc
cccgaaaauggauggcgcugaagcgcgcgacccacacccggccaucuggg
cgagugccaugccccgaugaguaggagggcgcggcggccgaugcaaaacc
cggggcgcgagcccgggcggagcggccgucggugcagaucuuggugguag
uagcaaauauucaaaugagaacuuugaaggccgaagaggagaaagguucc
augugaacggcacuugcacauggguaagccgauccuaagggaagggguaa
ccccggcagauagcgcgaucacgcgcauccccgaaagggaaucggguuaa
gauuucccgagccgggauguggcgguugacggcgacguuaggaaguccgg
agacgccggcgggggccucgggaagaguuaucuuuucugcuuaacggccu
gccaacccuggaaacgguucagccggagguaggguccaguggccggaaga
gcacacgucgcgcgguguccggugcgcccccggcggcccaugaaaauccg
gaggaccgaguaccguucacgcccggucguacucauaaccgcaucagguc
uccaaggugaacagccucuggccaauggaacaauguaggcaagggaaguc
ggcaaaacggauccguaacuucgggaaaaggauuggcucugaggacuggg
cucgggggucccggccccgaacccgucggcugucggcggauugcucgagc
ugcucacgcggcgagagcgggucgccgcgugccggccgggggacggaccg
ggaaucgccccuucgggggcuuuccccgagcaugaaacagucgacucaga
acugguacggacaaggggaauccgacuguuuaauuaaaacaaagcauugc
gaugguccucgcggaugcugacgcaaugugugauuucugcccagugcucu
gaaugucaaagugaagaaauucaaccaagcgcggguaaacggcgggagua
acuaugacucucuuaagguagccaaaugccucgucaucuaauuagugacg
cgcaugaaugaauggauuaacgagauucccacugucccugucuacuaucc
agcgaaaccacagccaagggaacgggcuuggcggaaucagcggggaaaga
agacccuguugagcuugacucuaguccgacuuugugaaaugacuugagag
guguaggauaagugggagcccucacgggcgcaagugaaauaccacuacuu
uuaacguuauuuuacuuauuccgugggucggaagcggggcaugccccucc
uuuuggcuccaaggcccggucuuaccgggccgauccgggcggaagacauu
gucagguggggaguuuggcuggggcggccaaucuguuaaaagauaacgca
gguguccuaagaugagcucaacgagaacagaaaucucguguggaacaaaa
ggguaaaagcucguuugauucugauuuccaguacgaauacgaaccgugaa
agcguggccuaucgauccuuuagacuucggaguuugaagcuagagguguc
agaaaaguuaccacagggauuacuggcuuguggcagccaagcguucauag
cgacguugcuuuuugauccuucgaugucggcucuuccuaucauugcgaag
cagaauucaccaaguguuggauuguucacccaccaauagggaacgugagc
uggguuuagaccgucgugagacagguuaguuuuacccuacugaugacagu
gucgcgauaguaauucaaccuaguacgagaggaaccguugauucacacaa
uuggucaucgcgcuugguugaaaagccaguggcgcgaagcuaccgugugc
cggauuaugacugaacgccucuaagucagaauccaagcuagcaugcgacg
ccugcgcccgccgcccgccccgacccacguuaggggcgcuugcgccccca
agggcccgugccauuggcuaagccgguccggccgaagugccgcggucggc
cgccucgaagcucccuucccaacgggcggugggcugaauccuuugcagac
gacuuaaauacgcgacggggcauuguaaguggcagaguggccuugcugcc
acgauccacugagauccaguccccgcgucgcacggauucgu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v7e Structures of the Sec61 complex engaged in nascent peptide translocation or membrane insertion.
• Resolution: 5.5 Å
• Binding residue (original residue number in PDB): M1 S2 H3 R4 K5 F6 E7 H8 P9 R10 H11 S13 L14 G15 F16 L17 P18 R19 K20 R21 S23 R24 R26 K28 V29 K30 S31 K50 M53 T54 H55 K62 G64 S65 H68 E74 Y92 T95 L99 R100 T101 L102 N103 S104 Y119 K120 N121 W122 C123 K124 S125 K126 K127 F130 T131 K132 Y133 A134 K152 K155 Y156 R161 K175 Q176 K177 K178 L181 M182 E183 T224 K225 G226 Y229 E230 R235 T239 R240 L241 P242 R243 K244 T245 H246 R247 R250 K251 V252 A253 C254 I255 G256 A257 W258 H259 P260 R262 V263 Y265 T266 V267 R269 Q272 H277 R278 T279 E280 M281 N282 K283 G313 P316 H317 G319 K329 C331 C332 V333 G334 P335 K336 K337 R343 L346 L347 Q349 R352 F369 H371 K382 Y384 G385 K388 A389
• Binding residue (residue number reindexed from 1): M1 S2 H3 R4 K5 F6 E7 H8 P9 R10 H11 S13 L14 G15 F16 L17 P18 R19 K20 R21 S23 R24 R26 K28 V29 K30 S31 K50 M53 T54 H55 K62 G64 S65 H68 E74 Y92 T95 L99 R100 T101 L102 N103 S104 Y119 K120 N121 W122 C123 K124 S125 K126 K127 F130 T131 K132 Y133 A134 K152 K155 Y156 R161 K175 Q176 K177 K178 L181 M182 E183 T224 K225 G226 Y229 E230 R235 T239 R240 L241 P242 R243 K244 T245 H246 R247 R250 K251 V252 A253 C254 I255 G256 A257 W258 H259 P260 R262 V263 Y265 T266 V267 R269 Q272 H277 R278 T279 E280 M281 N282 K283 G313 P316 H317 G319 K329 C331 C332 V333 G334 P335 K336 K337 R343 L346 L347 Q349 R352 F369 H371 K382 Y384 G385 K388 A389

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• 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:4v7e, PDBe:4v7e, PDBj:4v7e
• PDBsum: 4v7e
• PubMed: 24499919
• UniProt: Q7X744