2024-03-27 REL PDBe PDBe PDBe 2022-05-12 2023-02-08 2023-02-08 2024-03-27 Agence Nationale de la Recherche (ANR) ANR-16-CE11-0025 France Cryo-EM structure of Mycobacterium tuberculosis RNA polymerase holoenzyme dimer comprising sigma factor SigB, conformation 2 Brodolin K DNA-dependent RNA polymerase, alternative sigma, TRANSCRIPTION Morichaud Z Trapani S Vishwakarma RK Chaloin L Lionne C Lai-Kee-Him J Bron P Brodolin K Structural basis of the mycobacterial stress-response RNA polymerase auto-inhibition via oligomerization. Nat Commun UK 14 484 484 2023 36717560 doi:10.1038/s41467-023-36113-y 2041-1723 Morichaud Z Trapani S Vishwakarma R Chaloin L Lionne C Lai-Kee-Him J Bron P Brodolin K Structural basis of the mycobacterial stress-response RNA polymerase auto-inhibition via oligomerization Biorxiv US 2022 doi:10.1101/2022.07.04.498644 2692-8205 Hu Y Morichaud Z Perumal AS Roquet-Baneres F Brodolin K Mycobacterium RbpA cooperates with the stress-response sigma-B subunit of RNA polymerase in promoter DNA unwinding. Nucleic Acids Res UK 42 10399 10408 2014 25122744 doi:10.1093/nar/gku742 1362-4962 0389 NARHAD EMD-14378 other EM volume
the same complex in conformation 1
 RNA polymerase holoenzyme dimer with sigma factor sigB, conformation 2 RNA polymerase holoenzyme dimer with sigma factor sigB, conformation 2 0 1 2 3 4 5 6
RNA polymerase holoenzyme assembled from individually expressed RNA polymerase core and sigma factor sigB
Mycobacterium tuberculosis H37Rv 0.8 DNA-directed RNA polymerase subunit alpha Mycobacterium tuberculosis H37Rv Escherichia coli BL21(DE3) LEVO MLISQRPTLSEDVLTDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTEIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLILDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPSFDPSEVAGYDVATGTWSTEGAYDEQDYAETEQL P9WGZ1 2.7.7.6 DNA-directed RNA polymerase subunit alpha Mycobacterium tuberculosis H37Rv Escherichia coli BL21(DE3) LEVO MLISQRPTLSEDVLTDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTEIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLILDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPSFDPSEVAGYDVATGTWSTEGAYDEQDYAETEQL P9WGZ1 2.7.7.6 DNA-directed RNA polymerase subunit beta Mycobacterium tuberculosis H37Rv Escherichia coli BL21(DE3) LEVO MLISQRPTLSEDVLTDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTEIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLILDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPSFDPSEVAGYDVATGTWSTEGAYDEQDYAETEQL P9WGY9 2.7.7.6 DNA-directed RNA polymerase subunit beta' Mycobacterium tuberculosis H37Rv
contains C-terminal 6xHis-tag
Escherichia coli BL21(DE3) LEVO VNFFDELRIGLATAEDIRQWSYGEVKKPETINYRTLKPEKDGLFCEKIFGPTRDWECYCGKYKRVRFKGIICERCGVEVTRAKVRRERMGHIELAAPVTHIWYFKGVPSRLGYLLDLAPKDLEKIIYFAAYVITSVDEEMRHNELSTLEAEMAVERKAVEDQRDGELEARAQKLEADLAELEAEGAKADARRKVRDGGEREMRQIRDRAQRELDRLEDIWSTFTKLAPKQLIVDENLYRELVDRYGEYFTGAMGAESIQKLIENFDIDAEAESLRDVIRNGKGQKKLRALKRLKVVAAFQQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLIDLGAPEIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKSLSDLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMALELFKPFVMKRLVDLNHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPMLVEGKAIQLHPLVCEAFNADFDGDQMAVHLPLSAEAQAEARILMLSSNNILSPASGRPLAMPRLDMVTGLYYLTTEVPGDTGEYQPASGDHPETGVYSSPAEAIMAADRGVLSVRAKIKVRLTQLRPPVEIEAELFGHSGWQPGDAWMAETTLGRVMFNELLPLGYPFVNKQMHKKVQAAIINDLAERYPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRKKEILDHYEERADKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALREHYPDDNPIITIVDSGATGNFTQTRTLAGMKGLVTNPKGEFIPRPVKSSFREGLTVLEYFINTHGARKGLADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIVVELAERAPDGTLIRDPYIETSAYARTLGTDAVDEAGNVIVERGQDLGDPEIDALLAAGITQVKVRSVLTCATSTGVCATCYGRSMATGKLVDIGEAVGIVAAQSIGEPGTQLTMRTFHQGGVGEDITGGLPRVQELFEARVPRGKAPIADVTGRVRLEDGERFYKITIVPDDGGEEVVYDKISKRQRLRVFKHEDGSERVLSDGDHVEVGQQLMEGSADPHEVLRVQGPREVQIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRRVTIIDSGSTEFLPGSLIDRAEFEAENRRVVAEGGEPAAGRPVLMGITKASLATDSWLSAASFQETTRVLTDAAINCRSDKLNGLKENVIIGKLIPAGTGINRYRNIAVQPTEEARAAAYTIPSYEDQYYSPDFGAATGAAVPLDDYGYSDYRHHHHHH P9WGY7 2.7.7.6 DNA-directed RNA polymerase subunit omega Mycobacterium tuberculosis H37Rv Escherichia coli BL21(DE3) LEVO MSISQSDASLAAVPAVDQFDPSSGASGGYDTPLGITNPPIDELLDRVSSKYALVIYAAKRARQINDYYNQLGEGILEYVGPLVEPGLQEKPLSIALREIHADLLEHTEGE P9WGY5 2.7.7.6 RNA polymerase sigma factor SigB Mycobacterium tuberculosis H37Rv Escherichia coli BL21(DE3) LEVO MGSSHHHHHHSSGLVPRGSHMADAPTRATTSRVDSDLDAQSPAADLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLRHGERADRLRSYAS P9WGI5 singleParticle particle 1.4 7.9 ETHANE FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.5 7.0 GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 3064 49.6 1 254380
ab-into reconstruction
 1 FOURIER SPACE 6.75 FSC 0.143 CUT-OFF cryoSPARC 2.1 48593 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD cryoSPARC 2 cryoSPARC emd_14974.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 450 450 450 0 0 0 450 450 450 495.0 495.0 495.0 90.0 90.0 90.0 X Y Z -0.5290195 1.3410263 -0.0020605747 0.041922376 1.1 1.1 1.1 0.26 AUTHOR RNA polymerase dimer conformation 2 7PP4 PDB experimental model RIGID BODY FIT REAL emd_14974_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 450 450 450 0 0 0 450 450 450 495.0 495.0 495.0 90.0 90.0 90.0 X Y Z -2.096111 1.926165 0.00042607295 0.2252473 1.1 1.1 1.1 AUTHOR half map A emd_14974_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 450 450 450 0 0 0 450 450 450 495.0 495.0 495.0 90.0 90.0 90.0 X Y Z -2.063528 1.820493 0.00039974472 0.22676614 1.1 1.1 1.1 AUTHOR half map B