#=GF ID Flu_PB2_3rd
#=GF AC PF20949.1
#=GF DE Influenza RNA polymerase PB2 middle domain
#=GF AU Bateman A;0000-0002-6982-4660
#=GF SE Bateman A
#=GF GA 27.00 27.00;
#=GF TC 27.30 111.30;
#=GF NC 25.90 24.80;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch -E 1000 --cpu 4 -Z 75585367 HMM pfamseq
#=GF TP Domain
#=GF RN [1]
#=GF RM 8806170
#=GF RT Recombinant-baculovirus-expressed PB2 subunit of the influenza A
#=GF RT virus RNA polymerase binds cap groups as an isolated subunit.
#=GF RA Shi L, Galarza JM, Summers DF;
#=GF RL Virus Res 1996;42:1-9.
#=GF RN [2]
#=GF RM 26503046
#=GF RT Crystal structure of the RNA-dependent RNA polymerase from
#=GF RT influenza C virus.
#=GF RA Hengrung N, El Omari K, Serna Martin I, Vreede FT, Cusack S,
#=GF RA Rambo RP, Vonrhein C, Bricogne G, Stuart DI, Grimes JM, Fodor E;
#=GF RL Nature. 2015;527:114-117.
#=GF DR SO; 0000417; polypeptide_domain;
#=GF CC Influenza virus encodes a large, multidomain RNA-dependent RNA
#=GF CC polymerase that can both transcribe and replicate the viral RNA
#=GF CC genome. In influenza virus, the polymerase is composed of three
#=GF CC polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase
#=GF CC active site, whereas PB2 and PA/P3 contain, respectively,
#=GF CC cap-binding [1] and endonuclease domains required for
#=GF CC transcription initiation by cap-snatching [2]. This entry
#=GF CC represents the middle domain in Flu PB2 protein.
#=GF SQ 30
#=GS PB2S1_I34A1/106-248 AC P0DOG6.1
#=GS A2V6J9_9INFA/106-248 AC A2V6J9.1
#=GS A0A0B4UWZ1_9INFA/106-248 AC A0A0B4UWZ1.1
#=GS Q71FS4_9INFA/104-246 AC Q71FS4.1
#=GS A0A097F2S1_9ORTO/113-255 AC A0A097F2S1.1
#=GS E6XY50_9INFA/106-248 AC E6XY50.1
#=GS A0A2S3ZRU2_ARTGL/118-260 AC A0A2S3ZRU2.1
#=GS Q0QGM5_9INFA/106-248 AC Q0QGM5.1
#=GS PB2S1_I96A0/106-248 AC P0DOG5.1
#=GS PB2_I96A0/106-248 AC Q9Q0V1.1
#=GS A3DRU4_9INFA/106-248 AC A3DRU4.1
#=GS PB2_I68A5/106-248 AC P26108.1
#=GS E4UF22_9INFA/106-248 AC E4UF22.1
#=GS PB2_INCJH/113-255 AC Q9IMP3.2
#=GS Q6DNN3_9INFA/106-248 AC Q6DNN3.1
#=GS Q07FS4_9INFA/106-248 AC Q07FS4.1
#=GS A0A2V5ISC9_9MICC/1-85 AC A0A2V5ISC9.1
#=GS A0A2V5LCG3_9MICC/117-259 AC A0A2V5LCG3.1
#=GS PB2_I66A1/106-248 AC Q0A449.1
#=GS PB2_INBLE/108-250 AC Q9QLL6.1
#=GS PB2_I34A1/106-248 AC P03428.2
#=GS PB2_INCAA/113-255 AC Q6I7C4.1
#=GS V5SN71_9INFA/106-192 AC V5SN71.1
#=GS A0T1J1_9INFA/106-248 AC A0T1J1.1
#=GS F2P1F0_I66A1/106-248 AC F2P1F0.1
#=GS A0A172SNP0_9INFB/108-250 AC A0A172SNP0.1
#=GS A0S741_9INFA/115-257 AC A0S741.1
#=GS D1LNU3_I63A3/106-248 AC D1LNU3.1
#=GS Q6VE63_9INFA/115-257 AC Q6VE63.1
#=GS A0A0E4C2S8_9ORTO/113-255 AC A0A0E4C2S8.1
PB2S1_I34A1/106-248 .TNTVHYPKIYKTYFERVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKISPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A2V6J9_9INFA/106-248 t-STVHYPKVYKTYFEKVDRLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A0B4UWZ1_9INFA/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELHDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
Q71FS4_9INFA/104-246 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDVNPGHADLSVKEAQDVIMEVVFPNEVGARMLTSESQLAITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVSGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A097F2S1_9ORTO/113-255 .NNSEVIKEVYKSRFGRLERRKEIMWKELRFTLVDRQRRRVDTQPVEQRLRTGEIKDLQMWTLFEDEAPLASKFILDNYGLVKEMRSKFANKPLNKEVVAHMLEKQFNPESRFLPVFGAIRPERMELIHALGGETWIQEANTAG......
E6XY50_9INFA/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A2S3ZRU2_ARTGL/118-260 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
Q0QGM5_9INFA/106-248 t-STVHYPKVYKPYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMMAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
PB2S1_I96A0/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
PB2_I96A0/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A3DRU4_9INFA/106-248 a-STVHYPKVYKTYFDKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELRDCKISPLMVAYMLERELVRKTRFLPVAGGTSSIYIEVLHLTQGTCWEQMYTPGG......
PB2_I68A5/106-248 t-STVHYPKIYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKISPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
E4UF22_9INFA/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
PB2_INCJH/113-255 .NNSEVIKEVYKSRFGRLERRKEIMWKELRFTLVDRQRRRVDTQPVEQRLRTGEIKDLQMWTLFEDEAPLASKFILDNYGLVKEMRSKFANKPLNKEVVAHMLEKQFNPESRFLPVFGAIRPERMELIHALGGETWIQEANTAG......
Q6DNN3_9INFA/106-248 t-SAVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
Q07FS4_9INFA/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITREKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A2V5ISC9_9MICC/1-85 .----------------------------------------------------------MEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A2V5LCG3_9MICC/117-259 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
PB2_I66A1/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
PB2_INBLE/108-250 .GDTEGFEKVYESFFLRKMRLDNATWGRITFGPVERVRKRVLLNPLTKEMPPDEASNVIMEILFPKEAGIPRESTWIHRELIKEKREKLKGTMITPIVLAYMLERELVARRRFLPVAGATSAEFIEMLHCLQGENWRQIYHPGG......
PB2_I34A1/106-248 .TNTVHYPKIYKTYFERVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKISPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
PB2_INCAA/113-255 .NNSEVIKEVYKSRFGRLERRKEIMWKELRFTLVDRQRRRVDTQPVEQRLRTGEIKDLQMWTLFEDEAPLASKFILDNYGLVKEMRSKFANKPLNKEVVAHMLEKQFNPESRFLPVFGAIRPERMELIHALGGETWIQEANTAG......
V5SN71_9INFA/106-192 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDTNPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTIT--------------------------------------------------------------xxxxxx
A0T1J1_9INFA/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDVNPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLAITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVSGGTSSVYIEVLHLTQGICWEQMYTPGG......
F2P1F0_I66A1/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A172SNP0_9INFB/108-250 .GDTEGFEKVYESFFLRKMRLDNATWGRITFGPVERVRKRVLLNPLTKEMPPDEASNVIMEILFPKEAGIPRESTWIHRELIKEKREKLKGTMITPIVLAYMLERELVARRRFLPVAGATSAEFIEMLHCLQGENWRQIYHPGG......
A0S741_9INFA/115-257 t-STIHYPKVYKTYFEKVERLKHGTFGPVHFRNQIKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
D1LNU3_I63A3/106-248 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
Q6VE63_9INFA/115-257 t-STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
A0A0E4C2S8_9ORTO/113-255 d-NSSVIKDVYKAKFMKKERWRETLWGPMNFELVGKQRRVVETQPVEIKLNQKEIKELTMWVLFEDEANLASKFIQENFSLVLSLRELYKGKAVNKDVAAFMIAHQFSPEKRFLPTFGPIRPERMELLHCLGGDFWKIEAVTAG......
#=GC seq_cons T.STVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGG......
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