# STOCKHOLM 1.0
#=GF ID 1.10.601.10/FF/1653
#=GF DE RNA polymerase sigma factor SigA
#=GF AC 1.10.601.10/FF/1653
#=GF TP FunFam
#=GF DR CATH: 4.2
#=GF DR DOPS: 46.876
#=GS P18333/99-393       AC P18333
#=GS P18333/99-393       OS Chlamydia trachomatis D/UW-3/CX
#=GS P18333/99-393       DE RNA polymerase sigma factor SigA
#=GS P18333/99-393       DR GENE3D; 5ff10271e5c220d36dcb0e31fa719ce3/99-393; 
#=GS P18333/99-393       DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia trachomatis; 
#=GS A0A0E9D2P7/97-391   AC A0A0E9D2P7
#=GS A0A0E9D2P7/97-391   OS Chlamydia trachomatis
#=GS A0A0E9D2P7/97-391   DE RNA polymerase sigma factor SigA
#=GS A0A0E9D2P7/97-391   DR GENE3D; 220e15b0ef7007238a64c17765bf22a1/97-391; 
#=GS A0A0E9D2P7/97-391   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia trachomatis; 
#=GS A0A0C1HDR6/110-404  AC A0A0C1HDR6
#=GS A0A0C1HDR6/110-404  OS Neochlamydia sp. EPS4
#=GS A0A0C1HDR6/110-404  DE RNA polymerase sigma factor SigA
#=GS A0A0C1HDR6/110-404  DR GENE3D; 351263f90fa09ed1c2ce9363aba75132/110-404; 
#=GS A0A0C1HDR6/110-404  DR ORG; Bacteria; Chlamydiae; Chlamydiia; Parachlamydiales; Parachlamydiaceae; Neochlamydia; Neochlamydia sp. EPS4; 
#=GS A0A0C1JNZ7/94-388   AC A0A0C1JNZ7
#=GS A0A0C1JNZ7/94-388   OS Neochlamydia sp. TUME1
#=GS A0A0C1JNZ7/94-388   DE RNA polymerase sigma factor SigA
#=GS A0A0C1JNZ7/94-388   DR GENE3D; 479f8979f0237005d8694f165cb8bfb7/94-388; 
#=GS A0A0C1JNZ7/94-388   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Parachlamydiales; Parachlamydiaceae; Neochlamydia; Neochlamydia sp. TUME1; 
#=GS A0A1F8J0T3/92-386   AC A0A1F8J0T3
#=GS A0A1F8J0T3/92-386   OS Chlamydiae bacterium RIFCSPHIGHO2_01_FULL_44_39
#=GS A0A1F8J0T3/92-386   DE RNA polymerase sigma factor SigA
#=GS A0A1F8J0T3/92-386   DR GENE3D; 5adc269f188de8f4f344394ea78bf5d5/92-386; 
#=GS A0A1F8J0T3/92-386   DR ORG; Bacteria; Chlamydiae; Chlamydiae bacterium RIFCSPHIGHO2_01_FULL_44_39; 
#=GS A0A0H2X1L9/99-393   AC A0A0H2X1L9
#=GS A0A0H2X1L9/99-393   OS Chlamydia trachomatis A/HAR-13
#=GS A0A0H2X1L9/99-393   DE RNA polymerase sigma factor SigA
#=GS A0A0H2X1L9/99-393   DR GENE3D; 5ff10271e5c220d36dcb0e31fa719ce3/99-393; 
#=GS A0A0H2X1L9/99-393   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia trachomatis; 
#=GS A0A0H3MHM6/99-393   AC A0A0H3MHM6
#=GS A0A0H3MHM6/99-393   OS Chlamydia trachomatis 434/Bu
#=GS A0A0H3MHM6/99-393   DE RNA polymerase sigma factor SigA
#=GS A0A0H3MHM6/99-393   DR GENE3D; 5ff10271e5c220d36dcb0e31fa719ce3/99-393; 
#=GS A0A0H3MHM6/99-393   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia trachomatis; 
#=GS A0A0U0WR65/99-393   AC A0A0U0WR65
#=GS A0A0U0WR65/99-393   OS Chlamydia trachomatis
#=GS A0A0U0WR65/99-393   DE RNA polymerase sigma factor SigA
#=GS A0A0U0WR65/99-393   DR GENE3D; 5ff10271e5c220d36dcb0e31fa719ce3/99-393; 
#=GS A0A0U0WR65/99-393   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia trachomatis; 
#=GS G4NMR0/99-393       AC G4NMR0
#=GS G4NMR0/99-393       OS Chlamydia trachomatis A2497
#=GS G4NMR0/99-393       DE RNA polymerase sigma factor SigA
#=GS G4NMR0/99-393       DR GENE3D; 5ff10271e5c220d36dcb0e31fa719ce3/99-393; 
#=GS G4NMR0/99-393       DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia trachomatis; 
#=GS A0A0H5DQN1/94-388   AC A0A0H5DQN1
#=GS A0A0H5DQN1/94-388   OS Estrella lausannensis
#=GS A0A0H5DQN1/94-388   DE RNA polymerase sigma factor SigA
#=GS A0A0H5DQN1/94-388   DR GENE3D; 61e4589f85f933a5e7760d3c520860fd/94-388; 
#=GS A0A0H5DQN1/94-388   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Parachlamydiales; Criblamydiaceae; Estrella; Estrella lausannensis; 
#=GS A0A0F9BGP0/6-225    AC A0A0F9BGP0
#=GS A0A0F9BGP0/6-225    OS marine sediment metagenome
#=GS A0A0F9BGP0/6-225    DE Uncharacterized protein
#=GS A0A0F9BGP0/6-225    DR GENE3D; a1d8b07fe869538477cf8e48617d197d/6-225; 
#=GS A0A0F9BGP0/6-225    DR ORG; marine sediment metagenome; 
#=GS A0A1M3B9T8/94-388   AC A0A1M3B9T8
#=GS A0A1M3B9T8/94-388   OS Chlamydia sp. 32-24
#=GS A0A1M3B9T8/94-388   DE RNA polymerase subunit sigma
#=GS A0A1M3B9T8/94-388   DR GENE3D; b494cda0cfe94c61472fd514824b0d96/94-388; 
#=GS A0A1M3B9T8/94-388   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia sp. 32-24; 
#=GS A0A078L3M5/94-388   AC A0A078L3M5
#=GS A0A078L3M5/94-388   OS Candidatus Rubidus massiliensis
#=GS A0A078L3M5/94-388   DE RNA polymerase sigma factor SigA
#=GS A0A078L3M5/94-388   DR GENE3D; b494cda0cfe94c61472fd514824b0d96/94-388; 
#=GS A0A078L3M5/94-388   DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Candidatus Rubidus; Candidatus Rubidus massiliensis; 
#=GS Q9Z7F0/99-393       AC Q9Z7F0
#=GS Q9Z7F0/99-393       OS Chlamydia pneumoniae
#=GS Q9Z7F0/99-393       DE RNA polymerase sigma factor SigA
#=GS Q9Z7F0/99-393       DR GENE3D; cc7e5c9bb8d2356f37263f3eb8044415/99-393; 
#=GS Q9Z7F0/99-393       DR ORG; Bacteria; Chlamydiae; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia; Chlamydia pneumoniae; 
#=GF TC 0.0 0.0E+00
#=GF SQ 14
P18333/99-393               PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDAYLEERLLALKDPALSKPDQARLNDELEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLQLEQQINDLKARAERNKFAAAKLAAARRKLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0E9D2P7/97-391           PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDAYLEERLLALKDPALSKPDQARLNDELEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLQLEQQINDLKARAERNKFAAAKLAAARRKLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0C1HDR6/110-404          PDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQIQIERIIMRFGYSTAETIAIAQYLLQGKERFDKCVAEKEVPNKQEFLNLLPKLCALLKQEEQHLVELLKKIDDPDLNKENKPSLLEEVEKCRIRTQAYLRRFHVRHNIIEDFGELILRAYDRFLQLEKEIQELTPRAERNKFAAAKLASAKRKLKKREIAAGRTLEEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0C1JNZ7/94-388           PDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQIQIERIIMRFGYSTAETIAIAQYLLQGKERFDKCVAEKEVPNKQEFLNLLPKLCALLKQEEQHLVELLKKIDDPDLNKEEKPSLLEEVEKCRIRTQAYLRRFHVRHNIIEDFGELILRAYDRFLQLEKEIQELTPRAERNKFAAAKLASAKRKLKKREIAAGRTLEEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A1F8J0T3/92-386           SDDPVRMYLKEMGSVPLLTREEEVEISKRIEKAQIQIEKIIMRFRYSIREAISIAAHLIPGKERFDKIIAEKEVADKTHFLNLLPKLCELMKEEDLLLEELLIEGRDSDLKKEARAALLENIEKGRIRSQAYLRRFHCRHNIIEDFGEVILSAYERFLQLEKEIQELTPRAEKNKFAAAKLAAAKRKLYKRELAAGRNLDEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0H2X1L9/99-393           PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDAYLEERLLALKDPALSKPDQARLNDELEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLQLEQQINDLKARAERNKFAAAKLAAARRKLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0H3MHM6/99-393           PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDAYLEERLLALKDPALSKPDQARLNDELEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLQLEQQINDLKARAERNKFAAAKLAAARRKLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0U0WR65/99-393           PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDAYLEERLLALKDPALSKPDQARLNDELEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLQLEQQINDLKARAERNKFAAAKLAAARRKLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
G4NMR0/99-393               PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSTKEAVSIAQYLINGKERFDKIVSEKEVEDKTHFLNLLPKLISLLKEEDAYLEERLLALKDPALSKPDQARLNDELEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLQLEQQINDLKARAERNKFAAAKLAAARRKLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0H5DQN1/94-388           PDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQQQIERIIMRFRYSTYEAISIATFLLVGKERYDKCIAEKEVENKQEFIAKLPKLKELLKAEDVILDDLLNRLYGKDVKKSDTVKIAEDIEKCRIRTQAYLRLMHLRPNIIEDFGEVIMNSYDRFIDLEREIQELKPRAERNKFAHQKLEAAQRKLKKKELAAGRTIDEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A0F9BGP0/6-225            FQE--------------------------------------------------------------DKSMNLKEI---------LAKELKDLNDE----EKKFVADNSDKLSKEEKVKFEKELEKCRIRSQSYLRYFGCRHNVIDDFGEVILSSYDRFLLLEKEIEDLIPRAEKNKFANVKLIAAKRKLDKRELAAGRTLQEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A1M3B9T8/94-388           PDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQIQIEKIILRFRYCNSETISIANYLMNNKERFDKSVAEKEVLNKQEYLNLLPKLCHLLKEEDRTLETLLIKQNQSDLKKNDQAKMADDIEKCRIRTQAYLRRFHLRHNIIEDFGELILRAYERFLELEKEIQELIPRAERNKYAASKLAAASRKLKKRELAAGRTLDEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
A0A078L3M5/94-388           PDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQIQIEKIILRFRYCNSETISIANYLMNNKERFDKSVAEKEVLNKQEYLNLLPKLCHLLKEEDRTLETLLIKQNQSDLKKNDQAKMADDIEKCRIRTQAYLRRFHLRHNIIEDFGELILRAYERFLELEKEIQELIPRAERNKYAASKLAAASRKLKKRELAAGRTLDEFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
Q9Z7F0/99-393               PDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYLISGKERFDKIISEKEVEDKTHFLKLLPKLITLLKEEDTYLENLLLSLKQPDLSKQEAAKLNDSLEKCRIRTQAYLRCFHCRHNVTEDFGEVVFKAYDSFLHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIR
#=GC scorecons              5675555555555355553555555555555555355545545545432544455345324555599465599724533554497953358759522564473434444859455555356699899969799937649797679999676469759849966957945999799895599579599949895999988599999999999999999999799999999999999999999999999999999999999999999999999999999999999999999999999
#=GC scorecons_70           _**______________________________________________________________**_*__***_________***____**_*____*__*_______*_*________*_************_**_****_*******__***_**_**_**_**__********__**_**_***_***_******_***********************************************************************************************
#=GC scorecons_80           __*______________________________________________________________**____***_________*_*____*__*_______*_______*_*__________******_*_***_*__***__*****_____**_**_**__*__*__********__**_**_***_***_******_********************_**************************************************************************
#=GC scorecons_90           _________________________________________________________________**____**__________*_*____*__*_______________*_*__________**_***_*_***____*_*___****_____*__**_**__*__*__***_****__**__*_***_***_******_********************_**************************************************************************
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