6HA8
Cryo-em structure of the abcf protein vmlr bound to the bacillus subtilis ribosome
PDB DOI: 10.2210/pdb6ha8/pdb
Classification: RIBOSOME Organism(s): Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct
Deposited: 2018-08-07 Deposition Author(s): Abdelshahid, M. , Crowe-Mcauliffe, C. , Graf, M. , Huter, P. , Novacek, J. , Wilson, D.N.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.5 Å
Cryo-em structure of the abcf protein vmlr bound to the bacillus subtilis ribosome
Abdelshahid, M. , Crowe-Mcauliffe, C. , Graf, M. , Huter, P. , Novacek, J. , Wilson, D.N.
Primary Citation of Related Structures: 6HA8
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 16S rRNA | a | 1554 | NA | UUUAUCGGAGAGUUUGAUCCUGGCUCAGGACGAACGCUGGCGGCGUGCCUAAUACAUGCAAGUCGAGCGGACAGAUGGGAGCUUGCUCCCUGAUGUUAGCGGCGGACGGGUGAGUAACACGUGGGUAACCUGCCUGUAAGACUGGGAUAACUCCGGGAAACCGGGGCUAAUACCGGAUGGUUGUUUGAACCGCAUGGUUCAAACAUAAAAGGUGGCUUCGGCUACCACUUACAGAUGGACCCGCGGCGCAUUAGCUAGUUGGUGAGGUAACGGCUCACCAAGGCGACGAUGCGUAGCCGACCUGAGAGGGUGAUCGGCCACACUGGGACUGAGACACGGCCCAGACUCCUACGGGAGGCAGCAGUAGGGAAUCUUCCGCAAUGGACGAAAGUCUGACGGAGCAACGCCGCGUGAGUGAUGAAGGUUUUCGGAUCGUAAAGCUCUGUUGUUAGGGAAGAACAAGUGCCGUUCGAAUAGGGCGGUACCUUGACGGUACCUAACCAGAAAGCCACGGCUAACUACGUGCCAGCAGCCGCGGUAAUACGUAGGUGGCAAGCGUUGUCCGGAAUUAUUGGGCGUAAAGGGCUCGCAGGCGGUUUCUUAAGUCUGAUGUGAAAGCCCCCGGCUCAACCGGGGAGGGUCAUUGGAAACUGGGGAACUUGAGUGCAGAAGAGGAGAGUGGAAUUCCACGUGUAGCGGUGAAAUGCGUAGAGAUGUGGAGGAACACCAGUGGCGAAGGCGACUCUCUGGUCUGUAACUGACGCUGAGGAGCGAAAGCGUGGGGAGCGAACAGGAUUAGAUACCCUGGUAGUCCACGCCGUAAACGAUGAGUGCUAAGUGUUAGGGGGUUUCCGCCCCUUAGUGCUGCAGCUAACGCAUUAAGCACUCCGCCUGGGGAGUACGGUCGCAAGACUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAAGCAACGCGAAGAACCUUACCAGGUCUUGACAUCCUCUGACAAUCCUAGAGAUAGGACGUCCCCUUCGGGGGCAGAGUGACAGGUGGUGCAUGGUUGUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUGAUCUUAGUUGCCAGCAUUCAGUUGGGCACUCUAAGGUGACUGCCGGUGACAAACCGGAGGAAGGUGGGGAUGACGUCAAAUCAUCAUGCCCCUUAUGACCUGGGCUACACACGUGCUACAAUGGACAGAACAAAGGGCAGCGAAACCGCGAGGUUAAGCCAAUCCCACAAAUCUGUUCUCAGUUCGGAUCGCAGUCUGCAACUCGACUGCGUGAAGCUGGAAUCGCUAGUAAUCGCGGAUCAGCAUGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACACCACGAGAGUUUGUAACACCCGAAGUCGGUGAGGUAACCUUUUAGGAGCCAGCCGCCGAAGGUGGGACAGAUGAUUGGGGUGAAGUCGUAACAAGGUAGCCGUAUCGGAAGGUGCGGCUGGAUCACCUCCUUUCUA |
| P-tRNA(Leu) | x | 75 | NA | GCCGAGGUGGUGGAAUUGGUAGACACGCUACCUUGAGGUGGUAGUUUACGGGUUCAAGUCCCGUCCUCGGUACCA |
| mRNA | 7 | 3 | NA | CUU |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 30S ribosomal protein S12 | L | 138 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MPTINQLIRKGRVSKVENSKSPALNKGYNSFKKEHTNVSSPQKRGVCTRVGTMTPKKPNSALRKYARVRLTNGIEVTAYIPGIGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGALDTAGVENRAQGRSKYGTKKPKAK |
| 30S ribosomal protein S13 | M | 121 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MARIAGVDIPRDKRVVISLTYIFGIGRTTAQQVLKEAGVSEDTRVRDLTEEELGKIRDIIDKLKVEGDLRREVSLNIKRLIEIGSYRGIRHRRGLPVRGQNSKNNARTRKGPRRTVANKKK |
| 30S ribosomal protein S14 | N | 61 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAKKSMIAKQQRTPKFKVQEYTRCERCGRPHSVIRKFKLCRICFRELAYKGQIPGVKKASW |
| 30S ribosomal protein S15 | O | 89 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAITQERKNQLINEFKTHESDTGSPEVQIAILTDSINNLNEHLRTHKKDHHSRRGLLKMVGKRRNLLTYLRNKDVTRYRELINKLGLRR |
| 30S ribosomal protein S16 | P | 90 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAVKIRLKRMGAKKSPFYRIVVADSRSPRDGRFIETVGTYNPVAKPAEVKIDEELALKWLQTGAKPSDTVRNLFSSQGIMEKFHNAKQGK |
| 30S ribosomal protein S17 | Q | 87 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MSERNQRKVYQGRVVSDKMDKTITVVVETYKKHTLYGKRVKYSKKFKAHDENNQAKIGDIVKIMETRPLSATKRFRLVEVVEEAVII |
| 30S ribosomal protein S18 | R | 79 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAGGRRGGRAKRRKVCYFTSNGITHIDYKDVDLLKKFVSERGKILPRRVTGTNAKYQRKLTAAIKRARQMALLPYVSGE |
| 30S ribosomal protein S19 | S | 92 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MARSLKKGPFVDGHLMTKIEKLNETDKKQVVKTWSRRSTIFPQFIGHTIAVYDGRKHVPVFISEDMVGHKLGEFAPTRTYKGHASDDKKTRR |
| 30S ribosomal protein S20 | T | 88 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MPNIKSAIKRTKTNNERRVHNATIKSAMRTAIKQVEASVANNEADKAKTALTEAAKRIDKAVKTGLVHKNTAARYKSRLAKKVNGLSA |
| 50S ribosomal protein L24 | U | 103 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MHVKKGDKVMVISGKDKGKQGTILAAFPKKDRVLVEGVNMVKKHSKPTQANPQGGISNQEAPIHVSNVMPLDPKTGEVTRVGYKVEDGKKVRVAKKSGQVLDK |
| 30S ribosomal protein S2 | B | 246 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MSVISMKQLLEAGVHFGHQTRRWNPKMKRYIFTERNGIYIIDLQKTVKKVEEAYNFTKNLAAEGGKILFVGTKKQAQDSVKEEAQRSGMYYVNQRWLGGTLTNFETIQKRIKRLKDIEKMQENGTFDVLPKKEVVQLKKELERLEKFLGGIKDMKDLPDALFIIDPRKERIAVAEARKLNIPIIGIVDTNCDPDEIDVVIPANDDAIRAVKLLTSKMADAILEAKQGEEEAEVAEETAPETETTTA |
| Nucleotide-binding protein ExpZ | V | 548 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MHHHHHHKEIVTLTNVSYEVKDQTVFKHVNASVQQGDIIGIIGKNGAGKSTLLHLIHNDLAPAQGQILRKDIKLALVEQETAAYSFADQTPAEKKLLEKWHVPLRDFHQLSGGEKLKARLAKGLSEDADLLLLDQPTNHLDEKSLQFLIQQLKHYNGTVILVSHDRYFLDEAATKIWSLEDQTLIEFKGNYSGYMKFREKKRLTQQREYEKQQKMVERIEAQMNGLASWSEKAHAQSTKKEGFKEYHRVKAKRTDAQIKSKQKRLEKELEKAKAEPVTPEYTVRFSIDTTHKTGKRFLEVQNVTKAFGERTLFKNANFTIQHGEKVAIIGPNGSGKTTLLNIILGQETAEGSVWVSPSANIGYLTQEVFDLPLEQTPEELFENETFKARGHVQNLMRHLGFTAAQWTEPIKHMSMGERVKIKLMAYILEEKDVLILDQPTNHLDLPSREQLEETLSQYSGTLLAVSHDRYFLEKTTNSKLVISNNGIEKQLAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
| 50S ribosomal protein L27 | W | 94 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MLRLDLQFFASKKGVGSTKNGRDSEAKRLGAKRADGQFVTGGSILYRQRGTKIYPGENVGRGGDDTLFAKIDGTVKFERFGRDRKKVSVYPVAQ |
| 50S ribosomal protein L29 | Y | 66 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MKANEIRDLTTAEIEQKVKSLKEELFNLRFQLATGQLENTARIREVRKAIARMKTVIREREIAANK |
| 50S ribosomal protein L30 | Z | 59 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAKLEITLKRSVIGRPEDQRVTVRTLGLKKTNQTVVHEDNAAIRGMINKVSHLVSVKEQ |
| 50S ribosomal protein L32 | 0 | 59 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAVPFRRTSKMKKRLRRTHFKLNVPGMTECPSCGEMKLSHRVCKACGSYNGKDINVKSN |
| 50S ribosomal protein L33 1 | 1 | 49 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MRVNITLACTECGERNYISKKNKRNNPDRVEFKKYCPRDKKSTLHRETK |
| 50S ribosomal protein L34 | 2 | 44 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MKRTFQPNNRKRSKVHGFRSRMSSKNGRLVLARRRRKGRKVLSA |
| 50S ribosomal protein L35 | 3 | 66 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MPKMKTHRGSAKRFKKTGSGKLKRSHAYTSHLFANKSQKQKRKLRKSAVVSAGDFKRIKQMLANIK |
| 50S ribosomal protein L36 | 4 | 37 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MKVRPSVKPICEKCKVIRRKGKVMVICENPKHKQKQG |
| 30S ribosomal protein S3 | C | 218 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MGQKVNPVGLRIGVIRDWESKWYAGKDYADFLHEDLKIREYISKRLSDASVSKVEIERAANRVNITIHTAKPGMVIGKGGSEVEALRKALNSLTGKRVHINILEIKRADLDAQLVADNIARQLENRVSFRRAQKQQIQRTMRAGAQGVKTMVSGRLGGADIARSEYYSEGTVPLHTLRADIDYATSEADTTYGKLGVKVWIYRGEVLPTKKKNEEGGK |
| 50S ribosomal protein L31 | 6 | 66 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MKAGIHPNFKKATVKCACGNEFETGSVKEEVRVEICSECHPFYTGRQKFASADGRVDRFNKKYGLK |
| 50S ribosomal protein L1 | 8 | 232 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAKKGKKYVEAAKLVDRSKAYDVSEAVALVKKTNTAKFDATVEVAFRLGVDPRKNDQQIRGAVVLPNGTGKTQRVLVFAKGEKAKEAEAAGADFVGDTDYINKIQQGWFDFDVIVATPDMMGEVGKIGRVLGPKGLMPNPKTGTVTFEVEKAIGEIKAGKVEYRVDKAGNIHVPIGKVSFEDEKLVENFTTMYDTILKAKPAAAKGVYVKNVAVTSTMGPGVKVDSSTFNVK |
| 50S ribosomal protein L3 | D | 209 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MTKGILGRKIGMTQVFAENGDLIPVTVIEAAPNVVLQKKTAENDGYEAIQLGFDDKREKLSNKPEKGHVAKAETAPKRFVKELRGVEMDAYEVGQEVKVEIFSAGEIVDVTGVSKGKGFQGAIKRHGQSRGPMSHGSRYHRRPGSMGPVDPNRVFKGKLLPGRMGGEQITVQNLEIVKVDAERNLLLIKGNVPGAKKSLITVKSAVKSK |
| 50S ribosomal protein L4 | E | 207 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MPKVALYNQNGSTAGDIELNASVFGIEPNESVVFDAILMQRASLRQGTHKVKNRSEVRGGGRKPWRQKGTGRARQGSIRSPQWRGGGVVFGPTPRSYSYKLPKKVRRLAIKSVLSSKVIDNNIIVLEDLTLDTAKTKEMAAILKGLSVEKKALIVTADANEAVALSARNIPGVTVVEANGINVLDVVNHEKLLITKAAVEKVEEVLA |
| 50S ribosomal protein L5 | F | 179 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MNRLKEKYNKEIAPALMTKFNYDSVMQVPKIEKIVINMGVGDAVQNAKAIDSAVEELTFIAGQKPVVTRAKKSIAGFRLREGMPIGAKVTLRGERMYDFLDKLISVSLPRVRDFRGVSKKSFDGRGNYTLGIKEQLIFPEIDYDKVTKVRGMDIVIVTTANTDEEARELLTQVGMPFQK |
| 50S ribosomal protein L6 | G | 179 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MSRVGKKLLEIPSDVTVTLNDNNTVAVKGPKGELTRTFHPDMEIKVEDNVLTVARPSDQKEHRALHGTTRSLLGNMVEGVSKGFERGLELVGVGYRASKSGNKLVLNVGYSHPVEIVPEEGIEIEVPSQTKVVVKGTDKERVGAIAANIRAVRSPEPYKGKGIRYEGEVVRRKEGKSAK |
| 30S ribosomal protein S8 | H | 132 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MVMTDPIADMLTRIRNANMVRHEKLEIPASKLKREIAEILKREGFIRDVEFVEDSKQGIIRVFLKYGQNNERVITGLKRISKPGLRVYAKSNEVPRVLNGLGIAIISTSQGVLTDKEARAKQAGGEVLAYVW |
| 30S ribosomal protein S9 | I | 130 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MAQVQYYGTGRRKSSVARVRLVPGEGRIVVNNREISEHIPSAALIEDIKQPLTLTETAGTYDVLVNVHGGGLSGQAGAIRHGIARALLEADPEYRTTLKRAGLLTRDARMKERKKYGLKGARRAPQFSKR |
| 50S ribosomal protein L13 | J | 145 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MRTTPMANASTIERKWLVVDAAGKTLGRLSSEVAAILRGKHKPTYTPHVDTGDHVIIINAEKIELTGKKLTDKIYYRHTQHPGGLKSRTALEMRTNYPEKMLELAIKGMLPKGSLGRQMFKKLNVYRGSEHPHEAQKPEVYELRG |
| 50S ribosomal protein L14 | K | 122 | Bacillus Subtilis (Strain 168) , Escherichia Coli , Synthetic Construct | MIQQETRLKVADNSGAREVLTIKVLGGSGRKTANIGDVIVCTVKQATPGGVVKKGEVVKAVIVRTKSGARRSDGSYISFDENACVIIRDDKSPRGTRIFGPVARELRENNFMKIVSLAPEVI |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2018-08-07 Deposition Author(s): Abdelshahid, M. , Crowe-Mcauliffe, C. , Graf, M. , Huter, P. , Novacek, J. , Wilson, D.N.