BLASTP 2.2.17 [Aug-26-2007] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for composition-based statistics: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= 0001.2601.p (186 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding environmental samples from WGS projects 15,459,386 sequences; 5,307,515,862 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|YP_003775826.1| RNA polymerase sigma-E factor protein [Herba... 323 8e-87 ref|YP_004696420.1| ECF subfamily RNA polymerase sigma-24 subuni... 133 2e-29 ref|YP_004235097.1| ECF subfamily RNA polymerase sigma-24 subuni... 130 1e-28 ref|YP_004293925.1| RNA polymerase, sigma-24 subunit, ECF subfam... 127 9e-28 ref|YP_201642.1| RNA polymerase sigma-E factor [Xanthomonas oryz... 123 1e-26 >ref|YP_003775826.1| RNA polymerase sigma-E factor protein [Herbaspirillum seropedicae SmR1] gb|ADJ63918.1| RNA polymerase sigma-E factor protein [Herbaspirillum seropedicae SmR1] Length = 186 Score = 323 bits (828), Expect = 8e-87, Method: Composition-based stats. Identities = 161/186 (86%), Positives = 173/186 (93%) Query: 1 MSGPSVNSIEQEEIDLLDRISQGDRRAFERLYRHYFPRLAQFLRRLVRDGQLSEEIINDT 60 M GPS NSIEQE+IDL++RI+QGDR AFERLYR YFPRLAQFLRRLV DG LSEEIINDT Sbjct: 1 MHGPSANSIEQEDIDLIERIAQGDRGAFERLYRSYFPRLAQFLRRLVWDGPLSEEIINDT 60 Query: 61 MYVVWTKAHTYNGQSRVSTWIFAIAYRQGLKALSRVDTPVEMDQESMVADEFVEPDKQLS 120 M+VVWTKA TYNGQS+VSTWIFAIAY+QGLKALSRVDTPVEMD E+MV+DE VEP+ QLS Sbjct: 61 MFVVWTKAQTYNGQSKVSTWIFAIAYKQGLKALSRVDTPVEMDMETMVSDELVEPEHQLS 120 Query: 121 EAQLRRHIGGALDRLSFEHRTVMALTYFHGMSYDEIAHTMGCSINTVKTRMFYARQKLKV 180 E QLRRHIGGAL+RLSFEHRTVM LTYFHGMSY+EIA TMGCSINTVKTRMFYARQKLKV Sbjct: 121 ETQLRRHIGGALERLSFEHRTVMTLTYFHGMSYEEIADTMGCSINTVKTRMFYARQKLKV 180 Query: 181 FLSAYA 186 FLSAYA Sbjct: 181 FLSAYA 186 >ref|YP_004696420.1| ECF subfamily RNA polymerase sigma-24 subunit [Nitrosomonas sp. Is79A3] gb|AEJ03021.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Nitrosomonas sp. Is79A3] Length = 200 Score = 133 bits (334), Expect = 2e-29, Method: Composition-based stats. Identities = 78/178 (43%), Positives = 107/178 (60%), Gaps = 6/178 (3%) Query: 5 SVNSIEQEEIDLLDRISQGDRRAFERLYRHYFPRLAQFLRRLVRDGQLSEEIINDTMYVV 64 S + +++E L+ I+ GD AFE+LY+ YF RL+QF+ + R EIIND MYVV Sbjct: 14 SSQAQQEKERGLIAEIAIGDEHAFEQLYQIYFTRLSQFIFHITRRQDCIGEIINDVMYVV 73 Query: 65 WTKAHTYNGQSRVSTWIFAIAYRQGLKALSRVDTPVEMDQESMVADEF-VEPDKQ---LS 120 W KAHTY+ R STWI IAY + LK S V + + D+ + DE PD+ S Sbjct: 74 WEKAHTYDQVCRPSTWILGIAYFKALK--STVQSQIREDRSVELNDELDYFPDRGAQWTS 131 Query: 121 EAQLRRHIGGALDRLSFEHRTVMALTYFHGMSYDEIAHTMGCSINTVKTRMFYARQKL 178 + + R + A D+LS E R V+ +TY+ G+ Y EI+ M C NTVKTRMF+AR+ L Sbjct: 132 QMETRNWLEAAFDKLSMEQRAVVEMTYYQGLHYSEISEIMQCPENTVKTRMFHARKIL 189 >ref|YP_004235097.1| ECF subfamily RNA polymerase sigma-24 subunit [Acidovorax avenae subsp. avenae ATCC 19860] gb|ADX46530.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Acidovorax avenae subsp. avenae ATCC 19860] Length = 197 Score = 130 bits (326), Expect = 1e-28, Method: Composition-based stats. Identities = 81/179 (45%), Positives = 97/179 (54%), Gaps = 8/179 (4%) Query: 13 EIDLLDRISQGDRRAFERLYRHYFPRLAQFLRRLVRDGQLSEEIINDTMYVVWTKAHTYN 72 ++ LL I+ GDR A LYR Y RL QFL RL R L EEIIND +VVW KA T+ Sbjct: 11 DLALLHAIAAGDRDALATLYRGYHRRLGQFLTRLTRRTDLIEEIINDCFWVVWQKAGTFR 70 Query: 73 GQSRVSTWIFAIAYRQGLKALSRVDTPVEMDQESMVADEFVEPDKQL-----SEAQLRRH 127 G SRVSTWI I+YR GLK L R P +D V DE + +LR Sbjct: 71 GDSRVSTWIMGISYRCGLKVL-RQSGP--LDASDDVGDETAAERGHPGINPGDDRELRDW 127 Query: 128 IGGALDRLSFEHRTVMALTYFHGMSYDEIAHTMGCSINTVKTRMFYARQKLKVFLSAYA 186 + L RLS + R V+ L Y HG S +EIA + TVK RMF+AR KL+ L A Sbjct: 128 LAKGLARLSADQRLVLELAYTHGHSIEEIAVITQAPVGTVKARMFHARVKLRNLLPGLA 186 >ref|YP_004293925.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Nitrosomonas sp. AL212] gb|ADZ25763.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Nitrosomonas sp. AL212] Length = 193 Score = 127 bits (318), Expect = 9e-28, Method: Composition-based stats. Identities = 79/180 (43%), Positives = 107/180 (59%), Gaps = 12/180 (6%) Query: 10 EQEEIDLLDRISQGDRRAFERLYRHYFPRLAQFLRRLVRDGQLSEEIINDTMYVVWTKAH 69 + +E L+ + G+ +AFE+LY+ YF RL QF+ R+ R EEIIND MYVVW KA Sbjct: 12 QAKERHLIAEAAAGNGKAFEQLYQLYFNRLYQFIFRVNRHHDCIEEIINDVMYVVWEKAA 71 Query: 70 TYNGQSRVSTWIFAIAYRQGLKA----LSRVDTPVEMDQESMVADEFVEPDKQ---LSEA 122 TY+ R STWI IAY + LK+ R D VE + E D F PD++ +S+ Sbjct: 72 TYDQTCRPSTWILGIAYLKSLKSAKQNTKREDESVEFNDE---LDYF--PDRRVHWVSQL 126 Query: 123 QLRRHIGGALDRLSFEHRTVMALTYFHGMSYDEIAHTMGCSINTVKTRMFYARQKLKVFL 182 + + AL++LS E R V+ +TYF G+ Y EI+ M C NTVKTRMF+AR+ L F Sbjct: 127 EDSNWLEAALEKLSAEQRAVVEMTYFQGLHYSEISEIMQCPENTVKTRMFHARKILAKFF 186 >ref|YP_201642.1| RNA polymerase sigma-E factor [Xanthomonas oryzae pv. oryzae KACC10331] gb|AAW76257.1| RNA polymerase sigma-E factor [Xanthomonas oryzae pv. oryzae KACC10331] Length = 197 Score = 123 bits (309), Expect = 1e-26, Method: Composition-based stats. Identities = 69/171 (40%), Positives = 97/171 (56%), Gaps = 2/171 (1%) Query: 16 LLDRISQGDRRAFERLYRHYFPRLAQFLRRLVRDGQLSEEIINDTMYVVWTKAHTYNGQS 75 LL R++ GDR A +Y++Y RL +FL RL R + EE IND ++ W KA + G S Sbjct: 19 LLRRMAAGDRDALASMYQNYHSRLCRFLSRLTRRPDIIEEAINDCFWIAWQKAGDFRGDS 78 Query: 76 RVSTWIFAIAYRQGLKALSRVDTPVEMDQESMVADEFVEPDKQLSEAQLRRHIGGALDRL 135 +VSTWI IAYR GLK L + D +D ++V D D + +LR + ++RL Sbjct: 79 QVSTWIMGIAYRCGLKCLRQHDGEA-IDDTAVVEDHAPSADDN-DDRELRDWLDKGMERL 136 Query: 136 SFEHRTVMALTYFHGMSYDEIAHTMGCSINTVKTRMFYARQKLKVFLSAYA 186 S E R V+ L Y G +E+A M C + T+K R+F+AR KL+ L A Sbjct: 137 SPEQRLVIELVYGVGHKLEEVADIMQCPVGTIKARLFHARVKLRNVLPGLA 187