Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit head

Structure of the 70S Ribosome from the Human Pathogen Acinetobacter baumannii in Complex with Clinically Relevant Antibiotics.

The quality of the map is relatively poor so the related PDB entry 6YS5 (A. baumannii ribosome-amikacin complex - 30S subunit head) was rigid body fitted into the map using Chimera X-0.9, tigecycline was placed into the density at the primary site, and one round of global real space refinement and local refinement were carried out using PHENIX and Coot respectively, using ligand restraints in both cases.

Multi-body refinement was carried out in RELION 3.0 to obtain the final '30S subunit head' reconstruction. The mask used for this procedure is deposited with this entry.

Acinetobacter baumannii ATCC 19606 = CIP 70.34 = JCM 6841

E. coli fMet-tRNA from PDB 5AFI fitted into EM density - represents a mixture of tRNAs

Mixture of mRNAs at the E-site, modelled as polyuridine

residues 126-145 modelled without side chains

UUUAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCUUAACACAUGCAAGUCGAGCGGGGGAAGGUA
GCUUGCUACCGGACCUAGCGGCGGACGGGUGAGUAAUGCUUAGGAAUCUGCCUAUUAGUGGGGGACAACAUCUCGAAAGG
GAUGCUAAUACCGCAUACGUCCUACGGGAGAAAGCAGGGGAUCUUCGGACCUUGCGCUAAUAGAUGAGCCUAAGUCGGAU
UAGCUAGUUGGUGGGGUAAAGGCCUACCAAGGCGACGAUCUGUAGCGGGUCUGAGAGGAUGAUCCGCCACACUGGGACUG
AGACACGGCCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGGACAAUGGGGGGAACCCUGAUCCAGCCAUGCCGCG
UGUGUGAAGAAGGCCUUAUGGUUGUAAAGCACUUUAAGCGAGGAGGAGGCUACUUUAGUUAAUACCUAGAGAUAGUGGAC
GUUACUCGCAGAAUAAGCACCGGCUAACUCUGUGCCAGCAGCCGCGGUAAUACAGAGGGUGCGAGCGUUAAUCGGAUUUA
CUGGGCGUAAAGCGUGCGUAGGCGGCUUAUUAAGUCGGAUGUGAAAUCCCCGAGCUUAACUUGGGAAUUGCAUUCGAUAC
UGGUGAGCUAGAGUAUGGGAGAGGAUGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAGGAAUACCGAU
GGCGAAGGCAGCCAUCUGGCCUAAUACUGACGCUGAGGUACGAAAGCAUGGGGAGCAAACAGGAUUAGAUACCCUGGUAG
UCCAUGCCGUAAACGAUGUCUACUAGCCGUUGGGGCCUUUGAGGCUUUAGUGGCGCAGCUAACGCGAUAAGUAGACCGCC
UGGGGAGUACGGUCGCAAGACUAAAACUCAAAUGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCG
AUGCAACGCGAAGAACCUUACCUGGCCUUGACAUACUAGAAACUUUCCAGAGAUGGAUUGGUGCCUUCGGGAAUCUAGAU
ACAGGUGCUGCAUGGCUGUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUUUCCUUA
CUUGCCAGCAUUUCGGAUGGGAACUUUAAGGAUACUGCCAGUGACAAACUGGAGGAAGGCGGGGACGACGUCAAGUCAUC
AUGGCCCUUACGGCCAGGGCUACACACGUGCUACAAUGGUCGGUACAAAGGGUUGCUACACAGCGAUGUGAUGCUAAUCU
CAAAAAGCCGAUCGUAGUCCGGAUUGGAGUCUGCAACUCGACUCCAUGAAGUCGGAAUCGCUAGUAAUCGCGGAUCAGAA
UGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACACCAUGGGAGUUUGUUGCACCAGAAGUAGCUAGC
CUAACUGCAAAGAGGGCGGUUACCACGGUGUGGCCGAUGACUGGGGUGAAGUCGUAACAAGGUAGCCGUAGGGGAACCUG
CGGCUGGAUCACCUCCUUAACGAA

CGCGGGG(4SU)GGAGCAGCCUGG(H2U)AGCUCGUCGGGCUCAUAACCCGAAGAUCGUCGG(5MU)(PSU)CAAAUCCG
GCCCCCGCAACCA

MGQKVHPIGIRLGVVKRHNANWYANPKQYAEYLLKDLQVREFLTKKLKNAMVSNILIERPSGAAKVTISTARPGIVIGKK
GEDIEKLQRELTNIMGVPAQVSINEIDRPDLDARLVAEAIASQLEKRVMFRRAMKRAVQNTMRAGAKGIKVEVSGRLGGA
EIARTEWYREGRVPLHTLRADIDYATMRAETTYGTIGVKVWIFRGEILGGMKQVMNPAPAEERPAKRGRGRGEGQERRGR
RGDRAADKGE

MPRRRVVAAREILPDPKFSSQTIAKFMNHVMQDGKKSIAESIVYGALERVQEKNKVDPVEFFETTLEKVRPMVEVKARRV
GGATYQVPMEVRPSRRTALAMRWLVDAAAKRSEKTMALRLAGELLDAAEGKGAAIKKREDVHRMAEANKAFSHYRF

MATNYGTGRRKTATARVFLSAGTGKLVINNRTLEQYFGRETARMVVRQPLELLEATEKYDLYITVKGGGIGGQAGAIRHG
ITRALIAADETLKPVLRQAGFVTRDAREVERKKLGLRKARKRPQFSKR

MSNQRIRIRLKSFDHRLIDQSAQEIVETAKRTGAQVCGPIPMPTRIERFNVLTSPHVNKDARDQYEIRTYKRLIDIVQPT
DKTVDALMKLDLAAGVDVQIALG

MARIAGVNIPDNKHAVISLTYIFGIGRHTAKNILAAVGITETTKIRELDDAQLDAIRAEVAKVPTEGDLRREISMNIKRL
MDLGCYRGLRHRRSLPVRGQRTKTNARTRKGPRKPIKK

MAKKGMINRELKREKTVAKYAAKRAELKATIANVNASDEERFEAMLKLQALPRNASPVRLRNRCGLTGRPHGYFRKFGLS
RNKLRDTVMQGDVPGVVKASW

MPRSLKKGPFVDAHLFAKVEAAVASNSRKPIKTWSRRSMILPDFVGLTISVHNGRNHVPVIVTEHMVGHKLGEFAPTRTY
RGHGVDKKSKR

Acinetobacter baumannii (strain ATCC 19606 / DSM 30007 / CIP 70.34 / JCM 6841 / NBRC 109757 / NCIMB 12457 / NCTC 12156 / 81)

Acinetobacter baumannii ribosome-tigecycline complex - 50S subunit

Acinetobacter baumannii ribosome-tigecycline complex - 30S subunit body

Acinetobacter baumannii ribosome-amikacin complex - 30S subunit head, used for model building

antibiotic, tigecycline, translation, ribosome