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= 0030.0210.p (170 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313763|ref|YP_003777855.1| RNA polymerase sigma-70 factor,... 142 1e-35 gi|300309381|ref|YP_003773473.1| RNA polymerase sigma-70 factor ... 130 6e-32 gi|300311748|ref|YP_003775840.1| RNA polymerase sigma-70 factor,... 129 1e-31 gi|300312828|ref|YP_003776920.1| RNA polymerase sigma-70 factor,... 96 1e-21 gi|300312131|ref|YP_003776223.1| RNA polymerase sigma 24 factor ... 96 2e-21 >gi|300313763|ref|YP_003777855.1| RNA polymerase sigma-70 factor, ECF subfamily (sigma-24) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 169 Score = 142 bits (359), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 79/161 (49%), Positives = 103/161 (63%), Gaps = 1/161 (0%) Query: 4 LAPSRPH-DIAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRT 62 ++P+ H +I G+Y HH WL+ WL RR L ADLAQDTFVR++ R + E R Sbjct: 5 MSPAEAHQEIGGLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRA 64 Query: 63 LLATIARGLMIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPP 122 L TIA+GL+ H RR LE A+LE LA +P PS E +LLVL+TL E+D +L LP Sbjct: 65 YLTTIAKGLVASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPA 124 Query: 123 KVRSAFLLSQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTAC 163 + R FLL+QLDGL YA IA L +SLS+V+++M A C Sbjct: 125 RARQVFLLAQLDGLPYASIAGLLGISLSTVKRHMVLALRHC 165 >gi|300309381|ref|YP_003773473.1| RNA polymerase sigma-70 factor protein [Herbaspirillum seropedicae SmR1] Length = 181 Score = 130 bits (327), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 77/157 (49%), Positives = 106/157 (67%), Gaps = 1/157 (0%) Query: 9 PHDIAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRR-DFIVDEVRTLLATI 67 P I +Y HH WL GWL+RR N+E AADLAQDTF+R++ S R ++ E R L T+ Sbjct: 17 PMSIEALYCDHHSWLKGWLQRRLGNSEQAADLAQDTFLRLLGSERVPSVIHEPRAYLTTV 76 Query: 68 ARGLMIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVRSA 127 A+ L+ + +RR LE A+LE LAQ P PSP+ Q ++LETL E+D +L LP VR A Sbjct: 77 AQRLVSNLWRREKLEQAYLEALAQAPVALAPSPQEQAILLETLLELDQLLDELPSIVRRA 136 Query: 128 FLLSQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACY 164 FLLSQLDGL +A++A L +S+ +V++Y+ +A CY Sbjct: 137 FLLSQLDGLTHAQVAAALGISIPTVKRYLVKALQRCY 173 >gi|300311748|ref|YP_003775840.1| RNA polymerase sigma-70 factor, ECF subfamily (sigma-24) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 174 Score = 129 bits (325), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 73/157 (46%), Positives = 101/157 (64%), Gaps = 1/157 (0%) Query: 15 IYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFI-VDEVRTLLATIARGLMI 73 +Y+ HH WL WLRRR ++ AADLAQDTF+R++ V E R L+ IA GL++ Sbjct: 15 LYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLVV 74 Query: 74 DHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVRSAFLLSQL 133 D RR +E LE +A +P + SPEA+L+++E L +DA+L GL + R AFLLS+L Sbjct: 75 DKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSRL 134 Query: 134 DGLAYAEIAVRLEVSLSSVQQYMKRAFTACYRLQYGL 170 D ++Y EIA L VSLSSV++YM A CY ++ L Sbjct: 135 DEMSYPEIARHLGVSLSSVEKYMAAAIRHCYLMRQSL 171 >gi|300312828|ref|YP_003776920.1| RNA polymerase sigma-70 factor, ECF subfamily (sigma-24) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 178 Score = 95.9 bits (237), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 60/155 (38%), Positives = 88/155 (56%), Gaps = 1/155 (0%) Query: 12 IAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRTLLATIARGL 71 I I+ HH WL LRR +A A D+A +TF +++ S V E R LL TI+R + Sbjct: 16 IEAIFIEHHGWLRTRLRRSVGDAFTAEDVAAETFTQLLHSPPPQEVREPRALLTTISRRI 75 Query: 72 MIDHFRRCALEAAFLEMLAQMPPE-HLPSPEAQLLVLETLNEVDAMLAGLPPKVRSAFLL 130 + + +RR LE A L+ LA + + SPE QL +L+ L +D LAGL K +AFLL Sbjct: 76 VYELWRRRDLEEACLQALAHVSGDVQAISPEDQLQLLQALRAMDQALAGLSAKECAAFLL 135 Query: 131 SQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACYR 165 +LDGL Y I +L ++ S ++Y+ + CY+ Sbjct: 136 YKLDGLTYQAIGAQLRITPSVARRYVAKGLLQCYK 170 >gi|300312131|ref|YP_003776223.1| RNA polymerase sigma 24 factor protein [Herbaspirillum seropedicae SmR1] Length = 173 Score = 95.5 bits (236), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 67/159 (42%), Positives = 89/159 (55%) Query: 6 PSRPHDIAGIYTGHHRWLLGWLRRRTDNAELAADLAQDTFVRMMVSRRDFIVDEVRTLLA 65 P R + +T + WL +LRR+ + A D+A FV M I+ E R LL Sbjct: 12 PFRHDFLVTEFTNSYSWLKQYLRRQVKSLADAEDVASAAFVEMASLPDVSIIREPRALLT 71 Query: 66 TIARGLMIDHFRRCALEAAFLEMLAQMPPEHLPSPEAQLLVLETLNEVDAMLAGLPPKVR 125 TI++ L+ D +RR LEAA+L LA PSPE L V++TL +D +L GL R Sbjct: 72 TISQRLVFDLWRRRDLEAAYLAALATTEEATTPSPEVVLEVVQTLVNIDRLLYGLSKNAR 131 Query: 126 SAFLLSQLDGLAYAEIAVRLEVSLSSVQQYMKRAFTACY 164 AFL SQLDGL Y EIA L VS+S V++Y+ +A CY Sbjct: 132 QAFLYSQLDGLTYREIAELLGVSVSMVRKYIAQALAKCY 170 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.326 0.137 0.407 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 433,484 Number of extensions: 14166 Number of successful extensions: 90 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 85 Number of HSP's successfully gapped: 8 Length of query: 170 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 91 Effective length of database: 1,245,805 Effective search space: 113368255 Effective search space used: 113368255 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 127 (53.5 bits)