BLASTP 2.2.18 [Mar-02-2008] 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 compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.0732.p (850 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152980761|ref|YP_001352183.1| RNA polymerase primary sigma fa... 1254 0.0 gi|152980760|ref|YP_001353824.1| RNA polymerase sigma factor Rpo... 187 2e-48 gi|152980759|ref|YP_001354832.1| RNA polymerase sigma-32 factor ... 88 3e-18 gi|152980386|ref|YP_001353773.1| RNA polymerase sigma factor for... 61 4e-10 >gi|152980761|ref|YP_001352183.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] Length = 826 Score = 1254 bits (3244), Expect = 0.0, Method: Compositional matrix adjust. Identities = 660/800 (82%), Positives = 708/800 (88%), Gaps = 18/800 (2%) Query: 66 KKAAVKTAAAKPARAAAPKATATPANKL---------PQAAEQAVSVKATKTSVTTKKPE 116 K A K+A A AA K T++P+ P+ A + VSV+ +K VT KK E Sbjct: 30 KVVAAKSAGQAKAVAAKTKVTSSPSKAAAKTPAAKLSPKVAAKPVSVQ-SKAPVTNKKSE 88 Query: 117 TKTAKTTKAAKVEGK-----DVSATAASSVSQTTDAAALAAIDTSGYVLPSVKVPGRRGR 171 K A +K+AKVE K V+ ++VSQTTDAA LAAIDTSGY+LPS+KVPGRRGR Sbjct: 89 VKPA--SKSAKVEPKVESRPGVNVMITATVSQTTDAATLAAIDTSGYILPSIKVPGRRGR 146 Query: 172 KPKEFQPESDEVAALNTIERTELKAADKAKAKDRKAKEKALLKDAFSSDTEASEEELERR 231 KPKEFQPE+DE+AALN +ER ELKA DKAKAKDRKAKEKALLKDAFSSDTEASEEELE R Sbjct: 147 KPKEFQPENDEIAALNAVERAELKAVDKAKAKDRKAKEKALLKDAFSSDTEASEEELEAR 206 Query: 232 RQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAETL 291 RQKLKTLIK GKERGFLT++EINDHLPENI+DPEAIEGIIGTF+DMGI+VYE APDAETL Sbjct: 207 RQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYEQAPDAETL 266 Query: 292 LLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAK 351 LLSDNVA VASDD+AEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEI+IAK Sbjct: 267 LLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIDIAK 326 Query: 352 RIEDGLKDMIQAISACPTTIAEILAAAERISNDEIKVDEIVDGLVDPNESEQQVEAAASD 411 RIEDGL+DMIQAISACPTTIAEI+AAAERIS DE K+DEIVDGLVD + +E V A Sbjct: 327 RIEDGLRDMIQAISACPTTIAEIIAAAERISKDEAKIDEIVDGLVDMDAAEPVVAPPAPA 386 Query: 412 -SDEDDEEEEEEEEDEEEEENESSGSGAAGFSAEQLEQLKRDALGKFAVIGTQFENMRKA 470 S +D+E+EEEEEE+EEEEE ++ SGAAGFS+EQLEQLKRD+L KF+ I QF+ MRKA Sbjct: 387 ASSDDEEDEEEEEEEEEEEEETTAASGAAGFSSEQLEQLKRDSLAKFSTIAQQFDKMRKA 446 Query: 471 FEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQVDEVRTVERQILDVAVNK 530 FEKEGYNSKPYVKAQEIISNELL IRFTAK+VEKLCDTLR QVDEVR +E+QILDVAVN+ Sbjct: 447 FEKEGYNSKPYVKAQEIISNELLSIRFTAKVVEKLCDTLRGQVDEVRHIEKQILDVAVNR 506 Query: 531 CNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPAIKELQQKLIDLQARVVLP 590 C MPR HFIKVFPGNE NLDWVDGEV H YS VL+RNVP +KELQQKLIDLQARVVLP Sbjct: 507 CGMPRGHFIKVFPGNETNLDWVDGEVNGKHAYSVVLARNVPTVKELQQKLIDLQARVVLP 566 Query: 591 LQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 650 L DLRAINKKM AGE KAR AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 567 LPDLRAINKKMAAGEMKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 626 Query: 651 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQET 710 AVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQET Sbjct: 627 AVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQET 686 Query: 711 GAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADA 770 GAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADA Sbjct: 687 GAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADA 746 Query: 771 ALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 830 ALHASMR VVKD+LDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA Sbjct: 747 ALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 806 Query: 831 LRKLRHPSRSDKLKSFLEGN 850 LRKLRHPSRSDKLKSFLEGN Sbjct: 807 LRKLRHPSRSDKLKSFLEGN 826 >gi|152980760|ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinobacterium sp. Marseille] Length = 345 Score = 187 bits (475), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 93/227 (40%), Positives = 145/227 (63%), Gaps = 2/227 (0%) Query: 611 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 670 A+++M E NLRLV+SIAK Y NRG+ LDLI+EGN+GLM+A+DKFE RG++FSTYATWW Sbjct: 105 ARQKMIEHNLRLVVSIAKHYINRGVILLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWW 164 Query: 671 IRQAITRSIADQARTIRIPVHMIETINKMNRISRQI--LQETGAEPDPATLAIKMEMPED 728 IRQ+I R+I +QART+R+PVH++ +N+ R + G + +A ++ + Sbjct: 165 IRQSIERAIMNQARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVDRSVE 224 Query: 729 KIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADAALHASMRNVVKDILDSLT 788 ++ I+ +++ S++ P+ D S L D ++ ++ P A H M +V D L+ L Sbjct: 225 DVQDILALSEHATSLDAPLDGDPQSSLMDLLQGDHANDPDALAEHNEMTVLVHDWLEKLP 284 Query: 789 PREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 835 ++ V+ RFG++ TLE + + VTRER+RQI+ +AL KL+ Sbjct: 285 DKQRLVITRRFGLDNDDPATLEALAAEMHVTRERVRQIQQEALVKLK 331 >gi|152980759|ref|YP_001354832.1| RNA polymerase sigma-32 factor [Janthinobacterium sp. Marseille] Length = 298 Score = 87.8 bits (216), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 119/250 (47%), Gaps = 44/250 (17%) Query: 611 AKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 670 A +++ ++LRLV+SIA+ Y GL DLIQEGNIGLMKAV +F+ +G + +Y+ W Sbjct: 61 AAQKLVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYSMHW 120 Query: 671 IRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAE---PDPA-----TLAIK 722 I+ + I R +++ + N S +TG + PD TL +K Sbjct: 121 IKAEMHEYILKNWRLVKVATTKAQRKLFFNLRS----HKTGLDSMTPDQVDELAKTLNVK 176 Query: 723 MEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADAALHASMRNVVK- 781 E+ I +++ I++E P D+DD AP A L + M+ K Sbjct: 177 ---REEVIEMETRLSGRDIALEAPTDDEDDK-----------FAPI-AYLSSDMQEPTKV 221 Query: 782 ---------------DILDSLTPREAKVLRMRF-GIEMSTDHTLEEVGKQFDVTRERIRQ 825 + L L R +++ R+ + + TL E+ +F V+ ERIRQ Sbjct: 222 LESQQFDRLQTEGLSNALGKLDARSRRIVEARWLANDDGSGATLHELADEFGVSAERIRQ 281 Query: 826 IEAKALRKLR 835 IEA AL+K++ Sbjct: 282 IEAVALKKMK 291 >gi|152980386|ref|YP_001353773.1| RNA polymerase sigma factor for flagellar operon [Janthinobacterium sp. Marseille] Length = 243 Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 49/200 (24%), Positives = 96/200 (48%), Gaps = 11/200 (5%) Query: 639 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI-RIPVHMIETIN 697 DLIQ G IGL+ AV ++E G +F TYA IR A+ D+ R+ +P M + + Sbjct: 40 DLIQAGMIGLLDAVSRYEETHGAQFETYAVQRIRGAML----DELRSSDWMPRSMRQNMR 95 Query: 698 KMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMK--IAKEPISMETPIGDDDDSHL 755 K+ + Q G P+ + +A ++++ + ++ + + E +D+ H Sbjct: 96 KIEVAMNTLQQRLGRPPNESEVAKQLKLSLADYQDLLSDGGGHQLVYYEDFHDSEDNEHF 155 Query: 756 GDFIEDNNTLAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQ 815 D + + P ++ R V + + +L RE ++ + + EM+ L+E+G Sbjct: 156 LDRYCTDESPDPLQNLMNTGFRAAVIEAIQALPEREKILMGLYYEQEMN----LKEIGAV 211 Query: 816 FDVTRERIRQIEAKALRKLR 835 VT R+ Q+ ++A+ ++R Sbjct: 212 MGVTESRVSQLHSQAIARMR 231 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.311 0.126 0.334 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 1,323,767 Number of extensions: 47631 Number of successful extensions: 132 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 4 Length of query: 850 Length of database: 1,221,021 Length adjustment: 91 Effective length of query: 759 Effective length of database: 884,594 Effective search space: 671406846 Effective search space used: 671406846 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 134 (56.2 bits)