6DZK
Cryo-em structure of mycobacterium smegmatis c(minus) 30s ribosomal subunit with mpy
PDB DOI: 10.2210/pdb6dzk/pdb
Classification: RIBOSOME Organism(s): Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155
Deposited: 2018-07-05 Deposition Author(s): Agrawal, R.K. , Derbyshire, K.M. , Gray, A.G. , Kaushal, P.S. , Korripella, R. , Li, Y. , Lin, Q. , Ojha, A. , Sharma, M.R. , Wade, J.T. , Yang, Y.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.6 Å
Cryo-em structure of mycobacterium smegmatis c(minus) 30s ribosomal subunit with mpy
Agrawal, R.K. , Derbyshire, K.M. , Gray, A.G. , Kaushal, P.S. , Korripella, R. , Li, Y. , Lin, Q. , Ojha, A. , Sharma, M.R. , Wade, J.T. , Yang, Y.
Primary Citation of Related Structures: 6DZK
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 16S rRNA | a | 1511 | NA | UUUGGAGAGUUUGAUCCUGGCUCAGGACGAACGCUGGCGGCGUGCUUAACACAUGCAAGUCGAACGGAAAGGCCCUUUCGGGGGUACUCGAGUGGCGAACGGGUGAGUAACACGUGGGUGAUCUGCCCUGCACUUUGGGAUAAGCCUGGGAAACUGGGUCUAAUACCGAAUACACCCUGCUGGUCGCAUGGCCUGGUAGGGGAAAGCUUUUGCGGUGUGGGAUGGGCCCGCGGCCUAUCAGCUUGUUGGUGGGGUGAUGGCCUACCAAGGCGACGACGGGUAGCCGGCCUGAGAGGGUGACCGGCCACACUGGGACUGAGAUACGGCCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCGACGCCGCGUGAGGGAUGACGGCCUUCGGGUUGUAAACCUCUUUCAGCACAGACGAAGCGCAAGUGACGGUAUGUGCAGAAGAAGGACCGGCCAACUACGUGCCAGCAGCCGCGGUAAUACGUAGGGUCCGAGCGUUGUCCGGAAUUACUGGGCGUAAAGAGCUCGUAGGUGGUUUGUCGCGUUGUUCGUGAAAACUCACAGCUUAACUGUGGGCGUGCGGGCGAUACGGGCAGACUAGAGUACUGCAGGGGAGACUGGAAUUCCUGGUGUAGCGGUGGAAUGCGCAGAUAUCAGGAGGAACACCGGUGGCGAAGGCGGGUCUCUGGGCAGUAACUGACGCUGAGGAGCGAAAGCGUGGGGAGCGAACAGGAUUAGAUACCCUGGUAGUCCACGCCGUAAACGGUGGGUACUAGGUGUGGGUUUCCUUCCUUGGGAUCCGUGCCGUAGCUAACGCAUUAAGUACCCCGCCUGGGGAGUACGGCCGCAAGGCUAAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGCGGAGCAUGUGGAUUAAUUCGAUGCAACGCGAAGAACCUUACCUGGGUUUGACAUGCACAGGACGCCGGCAGAGAUGUCGGUUCCCUUGUGGCCUGUGUGCAGGUGGUGCAUGGCUGUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUGUCUCAUGUUGCCAGCACGUUAUGGUGGGGACUCGUGAGAGACUGCCGGGGUCAACUCGGAGGAAGGUGGGGAUGACGUCAAGUCAUCAUGCCCCUUAUGUCCAGGGCUUCACACAUGCUACAAUGGCCGGUACAAAGGGCUGCGAUGCCGUGAGGUGGAGCGAAUCCUUUCAAAGCCGGUCUCAGUUCGGAUCGGGGUCUGCAACUCGACCCCGUGAAGUCGGAGUCGCUAGUAAUCGCAGAUCAGCAACGCUGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACGUCAUGAAAGUCGGUAACACCCGAAGCCGGUGGCCUAACCCUUGUGGAGGGAGCCGUCGAAGGUGGGAUCGGCGAUUGGGACGAAGUCGUAACAAGGUAGCCGUACCGGAAGGUGCGGCUGGAUC |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 30S ribosomal protein S10 | J | 101 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MAGQKIRIRLKAYDHEAIDASARKIVETVTRTGASVVGPVPLPTEKNVYCVIRSPHKYKDSREHFEMRTHKRLIDILDPTPKTVDALMRIDLPASVDVNIQ |
| 30S ribosomal protein S11 | K | 138 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MAQAKKGGTAAKKGQKTRRREKKNVPHGAAHIKSTFNNTIVSITDPQGNVIAWASSGHVGFKGSRKSTPFAAQLAAENAARKAQEHGVKKVDVFVKGPGSGRETAIRSLQAAGLEVGTISDVTPQPHNGCRPPKRRRV |
| 30S ribosomal protein S12 | L | 124 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MPTIQQLVRKGRRDKIAKVKTAALKGSPQRRGVCTRVYTTTPKKPNSALRKVARVKLTSQVEVTAYIPGEGHNLQEHSMVLVRGGRVKDLPGVRYKIIRGSLDTQGVKNRKQARSRYGAKKEKS |
| 30S ribosomal protein S13 | M | 124 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MARLVGVDLPRDKRMEIALTYIYGIGRTRSNEILAATGIDKNMRTKDLTDDQVTVLRDYIEGNLKVEGDLRREVQADIRRKIEIGCYQGLRHRRGLPVRGQRTKTNARTRKGPKRTIAGKKKAR |
| 30S ribosomal protein S15 | O | 88 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | ALTAEQKKEILGQYGLHDTDTGSPEAQVALLTKRIQDLTEHLKVHKHDHHSRRGLLLLVGRRRRLLKYVAQVDVARYRSLIERLGLRR |
| 30S ribosomal protein S16 | P | 156 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MAVKIKLTRLGKIRNPQYRIIVADARTRRDGRAIEVIGRYHPKEEPSLIQIDSERAQYWLGVGAQPTEPVLALLKITGDWQKFKGLPGAEGTLKVKEPKPSKLDLFNAALAEAESGTTAAATTPKKKKAPKKDEAAEAPAEAAEAPAEAADAASES |
| 30S ribosomal protein S17 | Q | 98 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MADQKGPKYTPAAEKPRGRRKTAIGYVVSDKMQKTIVVELEDRKSHPLYGKIIRTTKKVKAHDENGEAGIGDRVSLMETRPLSATKRWRLVEILEKAK |
| 30S ribosomal protein S19 | S | 93 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MPRSLKKGPFVDDHLLKKVDVQNEKNTKQVIKTWSRRSTIIPDFIGHTFAVHDGRKHVPVFVTEAMVGHKLGEFAPTRTFKGHIKDDRKSKRR |
| 30S ribosomal protein S20 | T | 86 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MANIKSQIKRIRTNERRRLRNQSVKSSLRTAIRGFREAVDAGDKDKASELLHATSRKLDKAASKGVIHPNQAANKKSALALALNKL |
| 30S ribosomal protein S2 | V | 277 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MAVVTMKQLLDSGAHFGHQTRRWNPKMKRFIFTDRNGIYIIDLQQTLTYIDKAYEFVKETVAHGGTVLFVGTKKQAQESIAEEATRVGMPYVNQRWLGGMLTNFSTVHKRLQRLKELEAMEQTGGFEGRTKKEILMLTREKNKLERSLGGIRDMQKVPSAVWVVDTNKEHIAVGEARKLGIPVIAILDTNCDPDVVDYPIPGNDDAIRSAALLTKVIASAVAEGLQARAGQGSGEKPAEGAEPLAEWEQELLAGATAGAADASAEGAAAPESSTDAS |
| Conserved domain protein | B | 32 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | GSVIKKRRKRMSKKKHRKLLRRTRVQRRKLGK |
| 30S ribosomal protein S18 1 | R | 85 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MMAVKKSRKRTAATELKKPRRNQLEALGVTTIDYKDVAVLRTFLSERGKIRSRHVTGLTPQQQRQVATAIKNAREMALLPMAGPR |
| Ribosome hibernation promoting factor | Y | 230 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MSSHSMDSSRTMVVEDDRESTAGTTPERPHAEVVVKGRNVEVPDHFRTYVSEKLSRLERFDKTIYLFDVELDHERNRRQRKNCQHVEITARGRGPVVRGEACADSFYTAFESAVQKLEGRLRRAKDRRKIHYGDKTPVSLAEATAKDPLAGLDVSREDGEARYNDGVAEHEPGRIVRIKDHPATPMTVDDALYEMELVGHDFFLFHDKETDRPSVVYRRHAFDYGLIRLA |
| 30S ribosomal protein S14 | N | 100 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | AKKSKIVKNEQRRELVQRYAERRAELKRTIRDPASSPERRAAAVSALQRLPRDSSPVRLRNRDVVDGRPRGHLRKFGLSRVRVREMAHRGELPGVRKASW |
| 30S ribosomal protein S7 | G | 156 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MPRKGPAPKRPLVNDPVYGSQLVTQLVNKVLLEGKKSLAERIVYGALEQAREKTGTDPVVTLKRALDNVKPALEVRSRRVGGATYQVPVEVRPDRSTTLALRWLVNFSRQRREKTMVERLANEILDASNGLGASVKRREDTHKMAEANRAFAHYRW |
| 30S ribosomal protein S3 | C | 275 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MGQKINPHGFRLGITTEWKSRWYADKQYKDYVKEDVAIRKLLATGLERAGIADVEIERTRDRVRVDIHTARPGIVIGRRGTEADRIRADLEKLTGKQVQLNILEVKNPESQAQLVAQGVAEQLSNRVAFRRAMRKAIQSAMRQPNVKGIRVQCSGRLGGAEMSRSEFYREGRVPLHTLRADIDYGLYEAKTTFGRIGVKVWIYKGDIVGGKRELAAAAPASDRPRRERPSGTRPRRSGSAGTTATSTEAGRAATSDAPAAGTAAAAEAPAESTES |
| 30S ribosomal protein S4 | D | 201 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MARYTGPATRKSRRLGVDLVGGDQSFEKRPYPPGQHGRARIKESEYRQQLQEKQKARFSYGVMEKQFRRYYEEANRQPGKTGDNLLRILESRLDNVVYRAGLARTRRMARQLVSHGHFLVNGVKVDIPSYRVSQYDIIDVKEKSLNTLPFQIARETAGERPIPSWLQVVGERQRILVHQLPERAQIDVPLTEQLIVELYSK |
| 30S ribosomal protein S5 | E | 213 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | AEQAGAGSAQDNRGGRGRRDDRGGRGRDGGDKSNYIERVVSINRVSKVVKGGRRFSFTALVIVGDGKGMVGVGYGKAKEVPAAIAKGVEEARKNFFRVPLIGSTITHPVQGEAAAGVVMLRPASPGTGVIAGGAARAVLECAGVHDILAKSLGSDNAINVVHATVAALKLLQRPEEVAARRGLPIEDVAPAGMLKARRESEALAAAAAREGSA |
| 30S ribosomal protein S6 | F | 96 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MRPYEIMVILDPTLDERTVAPSLETFLNVIRKDGGTVDKVDIWGRRRLAYEIAKHAEGIYAVIDVKAEPATVSELDRQLNLNESVLRTKVLRTDKH |
| 30S ribosomal protein S8 | H | 131 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | TMTDPIADFLTRLRNANSAYHDEVTLPHSKLKANIAEILKREGYISDYRTEDARVGKSLVVQLKYGPSRERSIAGLRRVSKPGLRVYAKSTNLPRVLGGLGVAIISTSSGLLTDRQAARQGVGGEVLAYVW |
| 30S ribosomal protein S9 | I | 150 | Mycobacterium Smegmatis , Mycobacterium Smegmatis (Strain Atcc 700084 / Mc(2)155) , Mycobacterium Smegmatis Str. Mc2 155 | MTDVTETEVVTESAEPREPVIIDRPIQTVGRRKEAVVRVRLVPGTGQFNLDGRTLENYFPNKVHQQLIKAPLVTVDRVDQFDIYAHLDGGGPSGQAGALRLAIARALILVQPEDRPALKKAGFLTRDPRAIERKKYGLKKARKAPQYSKR |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2018-07-05 Deposition Author(s): Agrawal, R.K. , Derbyshire, K.M. , Gray, A.G. , Kaushal, P.S. , Korripella, R. , Li, Y. , Lin, Q. , Ojha, A. , Sharma, M.R. , Wade, J.T. , Yang, Y.