2024-05-22 REL PDBe PDBe PDBe 2020-04-24 2020-09-16 2020-09-16 2024-05-22 Wellcome Trust 203743/Z/16/Z United Kingdom Wellcome Trust 108466/Z/15/Z United Kingdom Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body Nicholson D Edwards TA O'Neill AJ Ranson NA antibiotic, tigecycline, translation, ribosome Nicholson D Edwards TA O'Neill AJ Ranson NA Structure of the 70S Ribosome from the Human Pathogen Acinetobacter baumannii in Complex with Clinically Relevant Antibiotics. Structure UK 28 1087 1100.e3 2020 32857965 doi:10.1016/j.str.2020.08.004 0969-2126 2005 STRUE6 EMD-10898 other EM volume
Acinetobacter baumannii ribosome-tigecycline complex - 50S subunit
 6yt9 FULLOVERLAP Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 Acinetobacter baumannii 16S ribosomal RNA Acinetobacter baumannii 0.500126156 2 UUUAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCUUAACACAUGCAAGUCGAGCGGGGGAAGGUA GCUUGCUACCGGACCUAGCGGCGGACGGGUGAGUAAUGCUUAGGAAUCUGCCUAUUAGUGGGGGACAACAUCUCGAAAGG GAUGCUAAUACCGCAUACGUCCUACGGGAGAAAGCAGGGGAUCUUCGGACCUUGCGCUAAUAGAUGAGCCUAAGUCGGAU UAGCUAGUUGGUGGGGUAAAGGCCUACCAAGGCGACGAUCUGUAGCGGGUCUGAGAGGAUGAUCCGCCACACUGGGACUG AGACACGGCCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGGACAAUGGGGGGAACCCUGAUCCAGCCAUGCCGCG UGUGUGAAGAAGGCCUUAUGGUUGUAAAGCACUUUAAGCGAGGAGGAGGCUACUUUAGUUAAUACCUAGAGAUAGUGGAC GUUACUCGCAGAAUAAGCACCGGCUAACUCUGUGCCAGCAGCCGCGGUAAUACAGAGGGUGCGAGCGUUAAUCGGAUUUA CUGGGCGUAAAGCGUGCGUAGGCGGCUUAUUAAGUCGGAUGUGAAAUCCCCGAGCUUAACUUGGGAAUUGCAUUCGAUAC UGGUGAGCUAGAGUAUGGGAGAGGAUGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAGGAAUACCGAU GGCGAAGGCAGCCAUCUGGCCUAAUACUGACGCUGAGGUACGAAAGCAUGGGGAGCAAACAGGAUUAGAUACCCUGGUAG UCCAUGCCGUAAACGAUGUCUACUAGCCGUUGGGGCCUUUGAGGCUUUAGUGGCGCAGCUAACGCGAUAAGUAGACCGCC UGGGGAGUACGGUCGCAAGACUAAAACUCAAAUGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCG AUGCAACGCGAAGAACCUUACCUGGCCUUGACAUACUAGAAACUUUCCAGAGAUGGAUUGGUGCCUUCGGGAAUCUAGAU ACAGGUGCUGCAUGGCUGUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUUUCCUUA CUUGCCAGCAUUUCGGAUGGGAACUUUAAGGAUACUGCCAGUGACAAACUGGAGGAAGGCGGGGACGACGUCAAGUCAUC AUGGCCCUUACGGCCAGGGCUACACACGUGCUACAAUGGUCGGUACAAAGGGUUGCUACACAGCGAUGUGAUGCUAAUCU CAAAAAGCCGAUCGUAGUCCGGAUUGGAGUCUGCAACUCGACUCCAUGAAGUCGGAAUCGCUAGUAAUCGCGGAUCAGAA UGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACACCAUGGGAGUUUGUUGCACCAGAAGUAGCUAGC CUAACUGCAAAGAGGGCGGUUACCACGGUGUGGCCGAUGACUGGGGUGAAGUCGUAACAAGGUAGCCGUAGGGGAACCUG CGGCUGGAUCACCUCCUUAACGAA CP009534.1 30S ribosomal protein S2 Acinetobacter baumannii 0.027680357
modelled without side chains
1 LEVO MADYNVSMRDLLQAGAHFGHQTRFWNPKMRQYIFGARNKIHIINLEHTVPALNDALNFANQLASKKNKVLFVGTKRAASN IIREQAQRAGQPYVDHRWLGGMLTNWKTLRQSINRLKDLQTQSQDGTFAKLTKREALERTREMEKLERSLGGVKNMGGLP DALFVIDVDHEAIAIKEAKNLGIPVIGIVDTNSNPDNVDYVIPGNDDAIRAVTLYASAMADAILAGKEYAQSQANAQAKG DDAAKDASEA D0CC74 30S ribosomal protein S4 Acinetobacter baumannii 0.023311817999999998
residues 23-30 and 43-51 modelled without side chains
1 LEVO MARYIGPKCKLSRREGTDLQLKSGVKPFDVKTKKANKAPGQHGQARGGKQSEYSLQLREKQKVRRIYGVLERQFSNYYKE AARVKGATGENLLKLLESRLDNVVYRMGFGSTRAEARQLVSHRSITLNGRRVNIASIQVKAGDVIAVHEGAKQQLRIKNA IELAAQRGIPAWIEVDHSKLEGTFKAAPDRSDLPAEINESLIVELYSK D0CD21 30S ribosomal protein S5 Acinetobacter baumannii 0.017181765999999998 1 LEVO MAKVEQNEGLVEKLVAVDRVAKVVKGGRIFSFTALTVVGDGNGRVGFGRGKAREVPAAISKALEAARRNMITVDLAGTTL QHPVNARHGASRVYMQPASEGTGVIAGGAMRAVLEAAGVHNVLAKCYGSTNAANVVNATFKGLRDMTSPEKVAAKRGKSV EEIQG D0CD14 30S ribosomal protein S6 Acinetobacter baumannii 0.014986951999999998 1 LEVO MRHYEIVLLVHPDQSDQVVGMVERYISQIKEADGQIHRLEDWGRRQLAYPINKIHKAHYILMNVECGQSTLDELEELFRY NDAIIRNLIIRREHAITEESLLAKSAEEKRARKAQREEAQQVAQEAE D0C5Z0 30S ribosomal protein S8 Acinetobacter baumannii 0.014250666999999998 1 LEVO MSMQDTVADMLTRVRNAQMAKKQTVSMPSSKLKVAIANVLQQEGYISNVEVAQEETKSTLTITLKYFEGKPVIEMVKRVS RPGLRQYRGKDKLPSVKQGLGIAIVSTSKGIMTDRAARAAGIGGEVIAFVS D0CD11 30S ribosomal protein S11 Acinetobacter baumannii 0.013558512 1 LEVO MAKDTRTRKKVTRTVSEGVAHIHASFNNTIVTITDRQGNALAWATSGGQGFRGSRKSTPFAAQVAAEVAGKAALDYGLKN LDVLVKGPGPGRESAVRALGAVGYKINSITDVTPIPHNGCRPPKKRRV D0CD20 30S ribosomal protein S12 Acinetobacter baumannii 0.013797133999999999 1 LEVO MATTNQLIRKGRTTLVEKSKVPALKACPQRRGVCTRVYTTTPKKPNSAMRKVCRVRLTSGFEVSSYIGGEGHNLQEHSVV LIRGGRVKDLPGVRYHTVRGSLDCAGVKDRNQSRSKYGAKRPKK D0C9P6 30S ribosomal protein S15 Acinetobacter baumannii 0.0101456 1 LEVO MALTNADRAEIIAKFARAENDTGSPEVQVALLTAQINDLQGHFKAHKHDHHSRRGLIRMVNQRRKLLDYLNGKDHERYTA LIGALGLRR D0CAU9 30S ribosomal protein S16 Acinetobacter baumannii 0.009215529 1 LEVO MVVIRLARGGAKKRPFYQIVVTDSRNARDGRFIERIGFFNPTAQGQAEKLRLDADRFAHWVSQGAQPSERVASLAAQAKK ATA D0CCR5 30S ribosomal protein S17 Acinetobacter baumannii 0.009543101 1 LEVO MSEKTVRTLTGKVVSDKMDKSIVVLIERRVQHPLYGKSIRRSTKLHAHDENNVAKIGDVVTIKESRPISKTKAWTLVEVV EAAAE D0CD06 30S ribosomal protein S18 Acinetobacter baumannii 0.009009452 1 LEVO MARFYRRRKFCRFTAENVAYIDYKDIDTLKQYITENGKIVPSRITGTKARYQRQLALAIKQARYLSLIPYTDNHK D0C5Y9 30S ribosomal protein S20 Acinetobacter baumannii 0.00972342 1 LEVO MANSAQAKKRARQNVKARKHNASLRSMVRTYIKRTLSAIAGGDYAVATEAYKKAVPVIDRMADKGIIHKNKAARHKSRLN AQVKALAN D0C7N1 30S ribosomal protein S21 Acinetobacter baumannii 0.008474032999999999
residues 2-36 modelled without side chains
1 LEVO MPQVKLKEGEPVDVAIRRFKRSCEKAGVLADVRKREFYEKPTQERKRKKAAAVKRYQKKLARESVRTTRLY D0C5Q3 MAGNESIUM ION 2.4305e-05 56 MG singleParticle particle 7.5 ETHANE FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.8 2.6 75000.0 FEI FALCON III (4k x 4k) INTEGRATING 1.1 62.0 1 Made by stochastic gradient descent in RELION 3.0 C1 2.7 FSC 0.143 CUT-OFF RELION 3.0
Multi-body refinement was carried out in RELION 3.0 to obtain the final '30S subunit body' reconstruction. The mask used for this procedure is deposited with this entry.
231159 MAXIMUM LIKELIHOOD RELION 3.0 MAXIMUM LIKELIHOOD RELION 3.0 emd_10914.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 426.00003 426.00003 426.00003 90.0 90.0 90.0 X Y Z -0.27918893 0.54495555 0.00022779037 0.0075380486 1.065 1.065 1.065 0.05 AUTHOR Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body, post-processed map 5MDZ PDB experimental model 5AFI w PDB experimental model RIGID BODY FIT correlation coefficient REAL emd_10914_msk_1.map emd_10914_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 426.00003 426.00003 426.00003 90.0 90.0 90.0 X Y Z -0.8172547 1.5702523 -0.0003268833 0.02836894 1.065 1.065 1.065 AUTHOR Acinetobacter baumannii ribosome-tigecycline complex - consensus map filtered by local resolution emd_10914_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 426.00003 426.00003 426.00003 90.0 90.0 90.0 X Y Z -0.0347244 0.15413296 -0.0010503612 0.0048294524 1.065 1.065 1.065 AUTHOR Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body, half map 2 emd_10914_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 426.00003 426.00003 426.00003 90.0 90.0 90.0 X Y Z -0.03303804 0.15174033 -0.0010863643 0.0048080734 1.065 1.065 1.065 AUTHOR Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body, half map 1