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7OQ4
Cryo-em structure of the atv rnap inhibitory protein (rip) bound to the dna-binding channel of the host's rna polymerase
PDB DOI: 10.2210/pdb7oq4/pdb
Classification: VIRAL PROTEIN Organism(s): Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri
Deposited: 2021-06-02 Deposition Author(s): Cheung, A.C.M. , Diaz-Santin, L.M. , Fouqueau, T. , Lucas-Staat, S. , Lukoyanova, N. , Matelska, D. , Pilotto, S. , Prangishvili, D. , Sheppard, C. , Werner, F.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.27 Å
Cryo-em structure of the atv rnap inhibitory protein (rip) bound to the dna-binding channel of the host's rna polymerase
Cheung, A.C.M. , Diaz-Santin, L.M. , Fouqueau, T. , Lucas-Staat, S. , Lukoyanova, N. , Matelska, D. , Pilotto, S. , Prangishvili, D. , Sheppard, C. , Werner, F.
Primary Citation of Related Structures: 7OQ4
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| DNA-directed RNA polymerase subunit A' | A | 880 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MSEKIIRGVKFGVLSPNEIRQMSVTAIITSEVYDEDGTPIEGGVMDPKLGVIEPGQKCPVCGNTLAGCPGHFGHIELIKPVIHIGYVKHIYDFLRSTCWRCGRIKIKEQDLERYKRIYNAIKLRWPSAARRLVEYIKKISIKNLECPHCGEKQFKIKLEKPYNFNEERNGSIVKLSPSEIRDRLERIPDSDVELLGYDPKSSRPEWMILTVLPVPPITIRPSITIESGIRAEDDLTHKLVDIIRLNERLKESIEAGAPQLIIEDLWDLLQYHVATYFDNEIPGLPPAKHRSGRPLRTLAQRLKGKEGRFRGNLSGKRVDFSARTVISPDPNLSIDEVGIPYTIARMLTVPERVTNINIERIRQYIINGPDKWPGANYVIKPDGRRIDLRYVKDRKELASSITAGYVVERHLVDGDVVLFNRQPSLHRISMMAHKVRVLPGRTFRLNLLDCPPYNADFDGDEMNLHVPQSEEAIAEARELMLVHKNIITPRYGGPIIGGGQDYISGAYLLSVKTTLLTVEEVATILGVTDFVGELGEPAILAPKPYYTGKQVISLFLPKDFNFHGPANISKGPRACKDEICPHDSFIVIKNGLLLEGVFDKKAIGNQQPESMLHWSIREYGTEYGKWLMDNVFKMFIRFLEMRGFTMTLEDITIPDEAQNEITTKIKEGYSQVDEYIRKFNEGQLEPIPGRTIEESLESYILDTLDKLRKVAGEIATKYLDPFNNVYIMAITGARGSELNITQMTALLGQQSVRGERIRRGYRERTLSLFKYGDIAPEARGFVKNSFMRGLSPYEMFFHAAGGREGLVDTAVKTSQSGYMQRRLINALSDLRIEYDGTVRSLYGDIVQVVYGDDAVHPMYSAHSKSVNVNRVIERVIGWKR |
| DNA-directed RNA polymerase subunit L | L | 90 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MEIKVIKEEQNYLELQIDGEEHTIGNLLKGMLLKVPGVKFAAYSLPHPLITSITIKILTDGSISAREALIKAIELAENYANLFIDEVKKI |
| DNA-directed RNA polymerase subunit N | N | 66 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MIIPIRCFTCGAVVADKWEPFSNRVMGGEDPEKVLTELGVNRYCCRRMLLSHVNIIREIIHYTRPI |
| DNA-directed RNA polymerase subunit P | P | 48 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MAKYRCGKCWKELDDDQLKTLPGVRCPYCGYRIIYMVRKPTVKIVKAI |
| Conserved protein | Q | 105 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MSEDDSKKEPEPEETEAEIKHEEISREEDDEGGEFSTVTISDIEMLLKDTEIWDKLLRNELSIEEAKKMFDDVARSYSKADKKKRRVEKKPKKGKVTKKSDEEEE |
| RNAP inhibitory protein | Z | 149 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MKNMLHPQKYETHVLDDLMEFYEGVIGYPEIDLRLAGEEAWLKGVNPELAEAVKKIIKTIRRYLEGSPYDGSEKPIPRYIIAEIFSQIAPEVQLLVNALDTEGKYGFLKHIKKLNLNSLAMLSKNYNENDKLWKELENEGYVYLELVPR |
| DNA-directed RNA polymerase subunit B | B | 1126 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MLDTESRWAIAESFFKTRGLVRQHLDSFNDFLRNKLQQVIYEQGEIVTEVPGLKIKLGKIRYEKPSIRETDKGPMREITPMEARLRNLTYSSPIFLSMIPVENNIEGEPIEIYIGDLPIMLKSVADPTSNLPIDKLIEIGEDPKDPGGYFIVNGSEKVIIAQEDLATNRVLVDYGKSGSNITHVAKVTSSAAGYRVQVMIERLKDSTIQISFATVPGRIPFAIIMRALGFVTDRDIVYAVSLDPQIQNELLPSLEQASSITSAEEALDFIGNRVAIGQKRENRIQKAEQVIDKYFLPHLGTSPEDRKKKGYYLASAVNKILELYLGRREPDDKDHYANKRVRLAGDLFTSLFRVAFKAFVKDLVYQLEKSKVRGRRLSLTALVRADIITERIRHALATGNWVGGRTGVSQLLDRTNWLSMLSHLRRVVSSLARGQPNFEARDLHGTQWGRMCPFETPEGPNSGLVKNLALLAQVSVGINESVVERVAYELGVVSVEDVIRRISEQNEDVEKYMSWSKVYLNGRLLGYYEDGKELAKKIRESRRQGKLSDEVNVAYIATDYLNEVHINCDAGRVRRPLIIVNNGTPLVDTEDIKKLKNGEITFDDLVKQGKIEFIDAEEEENAYVALNPQDLTPDHTHLEIWPSAILGIIASIIPYPEHNQSPRNTYQSAMAKQSLGLYASNYQIRTDTRAHLLHYPQMPLVQTRMLGVIGYNDRPAGANAILAIMSYTGYNMEDSIIMNKSSIERGMYRSTFFRLYSTEEVKYPGGQEDKIITPEAGVKGYKGKDYYRLLEDNGVVSPEVEVKGGDVLIGKVSPPRFLQEFKELSPEQAKRDTSIVTRHGENGIVDLVLITETLEGNKLVKVRVRDLRIPEIGDKFATRHGQKGVVGILIDQVDMPYTAKGIVPDIILNPHALPSRMTIGQIMEAIGGKYAALSGKPVDATPFLETPKLQEMQKEILKLGHLPDSTEVVYDGRTGQKLKSRILFGIVYYQKLHHMVADKMHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGFGTAMLIKDRLLDNSDKAVVYICDQCGYVGWYDRSKNRYVCPVHGDKSVLHPVTVSYAFKLLIQELMSMVISPRLILGEKVNLGGASNE |
| DNA-directed RNA polymerase subunit A'' | C | 393 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MIDEKLKGYIDKRLNEIKDKIPDKLHEDLRAAIMDINGVELTEEDIDRIIDLTIREYQQSLIEPGEAIGVVTAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIVDARKVPSTPMMTIYLTDEYKTDKDKALDIARRIEYTRVENVVSSVSVDISNMSITLQFDQEMLKDKGVSIEEIKKIITKLKLGEIRIEDNDEYSFTIYFEKIDSIMALFKMREKILNTKIKGVKGIKRAIVQKKGDEYVIITDGSNLEGIMNVTGVDINKIQTNNIHEVEEVLGIEAARELISREIKKVLEEQGLDVDMRHIVLVSDIMTRTGDIRQIGRHGVTGEKSSVLARAAFEVTVKHLLDAAARGEREEFKGVIENIIIGQPIRLGTGIVELTMKPNMR |
| DNA-directed RNA polymerase subunit D | D | 264 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MPISLIERNGLRLRLVLENYPLEFVNSIRRASILYVPVMAVDEVYFIENNSPLYDEILAHRLALVPFVSDEALEHYRPPEECAECKENCDGCYNRVYLDVEAKDQPLMIYSRDLKSEDQMITPVSGAIPIVLLGSKQKISLEARLRLGYGKEHIKYSPVSVSIVRYYPKVTVLGNCEKAVEVCPEGVFAMENNKLVVKNELSCILCEECLKYCAGSVSIESVENKFILEIESVGSLKPERILIEASKSLLRKLSELKSKLEAGK |
| DNA-directed RNA polymerase subunit E | E | 183 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MFKLVRAKGIVRIPPEYFGQSVDEIAIKILRQEYQEKLIKDIGVVLGIVNAKASEEGFIIFGDGATYHEVEFDMLVYTPIIHEVIEGEVSQVDNYGVYVNMGPVDGLVHISQITDDNLKFDSNRGILIGEKSKKSIQKGDRVRAMIISASMSSGRLPRIALTMKQPYLGKIEWINQEIAKASK |
| DNA-directed RNA polymerase, subunit F | F | 114 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MSYSLKTIEEHFVPYSIAKKYIKELIDTGSSSNLIQKTFDYLNSISRCDEDSASKIMKELEEIVKREDVRAVLASICPTTVEEVRSVLVIDPSTIYSTEQIQKIIEIIKKYVES |
| DNA-directed RNA polymerase, subunit G | G | 130 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MKEMMQGTCKISSIEKGALKNLYVVKMDCDNDLKIEFDITKELSIFSKDEEVTFIISREKPEYSEKDFCAHGYLFLERQQEDGSFIDEISLYGLIVKILSKNGLINSKLFKMMDHVYYCVKKKAHHHHHH |
| DNA-directed RNA polymerase subunit H | H | 84 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MRSSSKKKIDISNHELVPKHEILQLEEAYKLVKELGIKPEQLPWIRASDPVAKSIGAKPGDIIKITRKSPFTGESVTYRYVITG |
| DNA-directed RNA polymerase subunit K | K | 89 | Thermoanaerobacter Sp. (Strain X514) , Aliivibrio Fischeri | MTIDKINEIFKENWKNKLTKYEIARIISARALQLSMGALPLIDTSNLKSDDVISIAEEELKRGVLPITIRRIYPNGQVELISVRKIENR |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2021-06-02 Deposition Author(s): Cheung, A.C.M. , Diaz-Santin, L.M. , Fouqueau, T. , Lucas-Staat, S. , Lukoyanova, N. , Matelska, D. , Pilotto, S. , Prangishvili, D. , Sheppard, C. , Werner, F.