2025-07-09 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin em_software _em_admin.last_update _em_software.name DATABASE_REFERENCES citation citation_author _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID STRUCTURE_SUMMARY em_admin em_software pdbx_entry_details _em_admin.last_update _em_software.name _pdbx_entry_details.has_protein_modification PDBe PDBe 2023-12-04 2024-04-24 2024-04-24 2025-07-09 German Research Foundation (DFG) SFB960 Germany Cryo-EM structure of Pyrococcus furiosus apo form RNA polymerase contracted clamp conformation Tarau DM Reichelt R Heiss FB Pilsl M Hausner W Engel C Grohmann D RNA, Polymerase, Elongation, Complex, Pyrococcus furiosus, Archaea, Transcription, DNA Tarau D Grunberger F Pilsl M Reichelt R Heiss F Konig S Urlaub H Hausner W Engel C Grohmann D Structural basis of archaeal RNA polymerase transcription elongation and Spt4/5 recruitment. Nucleic Acids Res. UK 52 6017 6035 2024 38709902 doi:10.1093/nar/gkae282 1362-4962 0389 NARHAD 8rbo FULLOVERLAP Pyrococcus furiosus apo form of RNA polymerase contracted clamp conformation Pyrococcus furiosus apo form of RNA polymerase contracted clamp conformation 0 1 2 3 4 5 6 7 8 9 10 11 Pyrococcus furiosus DSM 3638 DNA-directed RNA polymerase subunit Rpo1N Pyrococcus furiosus DSM 3638 0.10361224999999999 1 Pyrococcus furiosus DSM 3638 LEVO MQSMKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGGRAGECPGHFGHIELA RPVIHVGFAKTIYRILESTCRECGRIKLTDEEIEEYMKKIELARNRRSEFNEIIKEIHKKAKERMVCPHCGAPQYPIKFE KPTIYWEIRKDEQGNEYRHRLMPTEVRDWLEKIPDKDLPLLGLDPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNEAPGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLS GKRVNFSARTVISPDPMISINEVGVPVEVAMELTVPEKVTEFNIERLRKMVLNGPDKYPGANYVIDPEGRRRRIMDSNKE TLANQLDIGWTVERHLMDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRDEVEQMLMFAGVDITELPEPDKYDENGNPLWSGKTIF SLLLPEDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR EYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIREIIREAEERVNKLIEAYKRGELEPLPGKSLEDTLE SLIMAVLAEARDNAGAVAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGAR AKGFVVNSYKSGLTPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVEYDGTVRSPEGIIVQFKYGEDGVDP MKSWRGKTVDVDRIIVRTLLKMRGNNKAKV A0A5C0XPL7 2.7.7.6 DNA-directed RNA polymerase subunit beta Pyrococcus furiosus DSM 3638 0.127188898 1 Pyrococcus furiosus DSM 3638 LEVO MRGPTVVDVTPDDLWIVMESYWQEKGLVRQHLDSYNAFIERGLQEVVNEFGGIKPDIPDFEVKFGKIRVGEPEFQEPHGQ RKPLYPMDARIRNLTYAAPLYLEMIPVIKGVEQDPVEVRIGELPIMLKSKVCRLYGLSDEELIKLGEDPKDPGGYFIING SERVIVSIEDIAPNRTLVEKDERQEKYIAKVFSYRHGYRALVAVERRKDGILYVDIPNVPKPVKFVYVMRALGLERDKDI VEAVGNDPEVQQIMFDNLEDASDITTQQEALEFIGKLVAPGQAREYRLKRAEYVIDNNLLPHMGVSPEDRIKKAYYLGMM ALKVIELSLGRRPEDDKDHYANKRLRLAGDLLKDLFRVAFSQLVKDIQYQMTKTYQRKGDKYTFGNIHRFIRNSIRPDVL TERIEHALATGAWPGGRTGVSQLLDRTNYMSTLSHLRRVTSPLDREQPHFEARDLHGTHWGRICPTETPEGPNCGLVKNL ALMAQITTAVPEEEIREYLMSLGIVPIEVRRPDPTLWRVYLNGVLIGTIEDGKALVQRIRQDRRSGKISDVINVAYYEDV KEVYVNSDDGRVRRPLIIVENGVPKLTKEHVQAVKEGRLKWSDLIKMGIIEYLDAEEEENAYVAMWPWEVTEEHTHLELM PAAILGLPASLVPYPEHNAAPRNTYGAGMAKQSLGLGWANFRIRVDTRGHLLHYPQIPLVNSRIMKAVGYEDRPAGQNFV VAVLAYQGYNMEDAIIINKASIERGLARSTFFRTYEAEEKKYLGGQTDKFEIPDPTVRGYRGEKYYRNLDEDGLIFPESK VEGKDVLVGRTSPPRFLEERGLGTVSLQERRETSVAVRPSEKGVVDKVIITETGDGTKLVKVTVRDLRIPELGDKFASRH GQKGVIGLIVPQEDMPWTESGIVPDLIVNPHGIPSRMTVGQLIEAIGGKVASLKGRRVDGTAFIGEPEEKLRKELEELGF KHTGREIMYDGITGKRLEADIFIGVIYYQRLHHMVADKIHARSRGPVQVLTKQPTEGRAREGGLRFGEMERDVLVGHGAA MLLIERLLEESDKTEVWVCENCGHIALEDKRRRRVYCPVCGEEERISKVEMSYAFKLLLDELKAMVIRPKLNLSERV Q8U0M3 DNA-directed RNA polymerase subunit Rpo1C Pyrococcus furiosus DSM 3638 0.044468156 1 Pyrococcus furiosus DSM 3638 LEVO MVSLSTIKSLIEKKGANLPENVKSELYEKLKKYNEKYKLTKAEIEAIIDDVVKEYERALVEPGEPVGTVAAQSIGEPSTQ MTLNTFHYAGVAEINVTLGLPRIIEIVDARKNPSTPMMTVYLDEEHRYDRAKAEEVARRIEGTTLENLARSTTLDLINFE FIVEIDPERLERSGLTMEKVVKKLESSFKSAEFEVDGYTLIVRPKKADKISDLRRFAEKIKKHRLKGLSGVGKTIVRKEG DEYVIYTEGSNFKQVLKVPGVDPTRTRTNNIHEIAEVLGIEAARNAIIDEIVSTMQEQGLEVDIRHIMLVADMMTLDGIV RPIGRHGVVGEKSSVLARAAFEITVQHLFEAAEKGEVDNLNGVIENVLIGQPVPVGTGMVKLTMKLPLRPQKEKEEV Q8U0M5 2.7.7.6 DNA-directed RNA polymerase subunit Rpo3 Pyrococcus furiosus DSM 3638 0.031688194999999995 1 Pyrococcus furiosus DSM 3638 LEVO MAGIEVQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHRLAMIPLTTPVDRFELD ALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNPNIPIVKLAEGQRLVFNAYAKLGRGKDHAKWQPGFVYYKYYTI VHISKSIPEWKELKKLAKKRGLPVEETEEEVLVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSI ALKILMRKADRFISELQKLTSWSHPQFEKHHHHHH Q8U0E4 2.7.7.6 DNA-directed RNA polymerase subunit Rpo7 Pyrococcus furiosus DSM 3638 0.021731455 1 Pyrococcus furiosus DSM 3638 LEVO MYKIVTVKDVVRIPPTMFTMDPKEAAKIILRETYEGTYDKDEGVILSILEVKDIKDGIIIPGDGATYHEVVFDVLVWEPK IHEVVEGYVADVMPFGAFIRIGPIDGLVHISQLMDDYVVYDERNKQFVGKEKKYLLKIGDLVRARIINISAKSKVIRENR IGLTMRQPGLGKFEWIEKEKKKEKEEGKK Q8U439 DNA-directed RNA polymerase subunit Rpo4 Pyrococcus furiosus DSM 3638 0.014116311 1 Pyrococcus furiosus DSM 3638 LEVO MIGRGKLGEKYITIAEAKELLLKRREEEVKAGIEEPLYYEARLALEHAERFAKLPADKAKEAVEELMNAFEWMSDRIACK IVDIMPEDSMDLRVIFAKEEYQPTQEEMKQILDILDKYRE Q8U216 2.7.7.6 DNA-directed RNA polymerase subunit Rpo5 Pyrococcus furiosus DSM 3638 0.009260791999999999 1 Pyrococcus furiosus DSM 3638 LEVO MAGKKEFSIFDHVLVPEHRVLSEEEKKALLEKYKITLAQLPQIKASDPAVKALGAKPGDVIEIKRKSPTAGVYYYYRVVV ED Q8U0M2 2.7.7.6 DNA-directed RNA polymerase subunit Rpo6 Pyrococcus furiosus DSM 3638 0.006243489999999999 1 Pyrococcus furiosus DSM 3638 LEVO MFKYTRFEKARIIGARALQISMGAPVLIDVPPGITPLEAAILEFEKGVIPITVIRPS Q8U0E8 2.7.7.6 DNA-directed RNA polymerase subunit Rpo11 Pyrococcus furiosus DSM 3638 0.011132763999999998 1 Pyrococcus furiosus DSM 3638 LEVO MKIEVIKKEENLLEFYLEGEDHTFANLLVETLRENPHVKFTAYTIEHPITMARKPRFRVVTDGEITPEEALEEAAKKIFE RAKEVLEAWEKAVKS Q8U4N1 2.7.7.6 DNA-directed RNA polymerase subunit Rpo10 Pyrococcus furiosus DSM 3638 0.007800158 1 Pyrococcus furiosus DSM 3638 LEVO MIVPVRCFTCGKVIGDKYYEFKRRVEAGEDPEKVLDDLGLERYCCRRMLLSHVELIDDIMHYRVY P60292 2.7.7.6 DNA-directed RNA polymerase subunit Rpo12 Pyrococcus furiosus DSM 3638 0.00577005 1 Pyrococcus furiosus DSM 3638 LEVO MVEAVYRCFKCGREVKLDLSITRDLRCPYCGSKILYKPRPKVPRRVKAI Q8TZI3 2.7.7.6 ZINC ION 6.5409e-05 5 ZN MAGNESIUM ION 2.4305e-05 1 MG singleParticle particle 8.0 ETHANE JEOL CRYO ARM 200 OTHER OTHER FIELD EMISSION GUN 200 0.6 2.0 GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 1.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION 3.02 FSC 0.143 CUT-OFF 111194 ANGULAR RECONSTITUTION ANGULAR RECONSTITUTION emd_19033.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 290.4 290.4 290.4 90.0 90.0 90.0 X Y Z -0.2534095 0.5410489 0.00066239276 0.021771967 0.968 0.968 0.968 0.095 AUTHOR emd_19033_msk_1.map emd_19033_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 290.4 290.4 290.4 90.0 90.0 90.0 X Y Z -0.5267185 0.8179118 0.0012099543 0.055756915 0.968 0.968 0.968 AUTHOR emd_19033_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 290.4 290.4 290.4 90.0 90.0 90.0 X Y Z -0.43879378 0.7446079 0.0012012939 0.05550161 0.968 0.968 0.968 AUTHOR