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= 0001.1898.p (260 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095095|ref|YP_001100170.1| basal-body rod protein [Hermini... 390 e-110 gi|134095096|ref|YP_001100171.1| basal-body rod protein [Hermini... 98 5e-22 gi|134095097|ref|YP_001100172.1| flagellar hook protein FlgE [He... 81 5e-17 >gi|134095095|ref|YP_001100170.1| basal-body rod protein [Herminiimonas arsenicoxydans] Length = 242 Score = 390 bits (1001), Expect = e-110, Method: Compositional matrix adjust. Identities = 188/242 (77%), Positives = 217/242 (89%) Query: 19 LDVISNNLANVSTNGFKRSRAVFEDLLYQTVRQPGAQSSQQTQLPSGLQIGTGVRPVATE 78 +DVISNNLANVST GFKRSRAVFEDLLYQT+RQPGA SSQQT+LPSGLQ+GTGVRPVATE Sbjct: 1 MDVISNNLANVSTTGFKRSRAVFEDLLYQTIRQPGAASSQQTELPSGLQLGTGVRPVATE 60 Query: 79 RIFTQGNVNQTNNDKDLAIQGNGFFQILLPDGTTAYTRDGSFQTDNQGQLVTSSGYTLQP 138 RI TQGN+ T+N K+LAI+G+GFFQ+L+PDGTTAYTRDGSFQTDNQGQ+VTSSG+ +QP Sbjct: 61 RIHTQGNLQLTSNAKNLAIEGDGFFQVLMPDGTTAYTRDGSFQTDNQGQMVTSSGFPIQP 120 Query: 139 PITVPLNTTKLTVGRDGTVSIMQAGSTATTQIGTIQVATFINPAGLESRGENLYVETAAS 198 IT+P N T +T+ RDG VS+ +G+TA T+IG +Q+ATFINPAGL SRGENLYVET AS Sbjct: 121 AITIPENATSITISRDGIVSVTVSGTTAATEIGALQLATFINPAGLMSRGENLYVETTAS 180 Query: 199 GTPNPNTPGTNGAGALWQGYVETSNVNVVEELVNMIQTQRAYEINSKAITTSDQMLAKIS 258 GT N NTPG+NGAG L Q YVETSNVNVVEELV+MIQTQRAYEINSKAITTSDQML +++ Sbjct: 181 GTANTNTPGSNGAGLLKQNYVETSNVNVVEELVSMIQTQRAYEINSKAITTSDQMLQRLT 240 Query: 259 QL 260 Q+ Sbjct: 241 QI 242 >gi|134095096|ref|YP_001100171.1| basal-body rod protein [Herminiimonas arsenicoxydans] Length = 246 Score = 97.8 bits (242), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 80/267 (29%), Positives = 129/267 (48%), Gaps = 32/267 (11%) Query: 1 MIRSLWISKTGLDAQQTQLDVISNNLANVSTNGFKRSRAVFEDLLYQTVRQPGAQSSQQT 60 M R ++ + TG Q +++NL+NVST GF+ F + P ++ T Sbjct: 1 MDRLIYTAMTGAKQILEQQATVTHNLSNVSTTGFRAQLDTFRAV-------PVVNAALPT 53 Query: 61 QLPSGLQIGTGVRPVATERIFTQGNVNQTNNDKDLAIQGNGFFQILLPDGTTAYTRDGSF 120 + T V F G QT D D+AIQG G+ + DGT YTR GS Sbjct: 54 R--------TFVVDSTVGNDFRAGPFQQTGRDLDVAIQGKGWLAVERADGTEGYTRSGSL 105 Query: 121 QTDNQGQLVTSSGYTLQ---PPITVPLNTTKLTVGRDGTVSIMQAGSTA--TTQIGTIQV 175 + + G L T SG + PI++P + ++T+ +DGT+S +++GS T Q+G ++ Sbjct: 106 KVNENGVLQTQSGLNVLGDGGPISIPPD-VQITIAKDGTISSVESGSKPGQTIQVGRLK- 163 Query: 176 ATFINP--AGLESRGENLYVETAASGTPNPNTPGTNGAGALWQGYVETSNVNVVEELVNM 233 +NP A L+ + L+V T + + +L G VE SNVNVV+ +VNM Sbjct: 164 --LVNPDEANLKRADDGLFV------TKDGEDVAADADVSLVSGAVEGSNVNVVDAMVNM 215 Query: 234 IQTQRAYEINSKAITTSDQMLAKISQL 260 I R +E++ + ++ AK ++ Sbjct: 216 ITLARQFELHMNMLKHAESNAAKATEF 242 >gi|134095097|ref|YP_001100172.1| flagellar hook protein FlgE [Herminiimonas arsenicoxydans] Length = 418 Score = 80.9 bits (198), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 49/135 (36%), Positives = 76/135 (56%), Gaps = 2/135 (1%) Query: 127 QLVTSSGYTLQPPITVPLNT-TKLTVGRDGTVSIMQAGSTATTQIGTIQVATFINPAGLE 185 Q S G Q P P T T V DG++ + + + +G + +++F NP GL+ Sbjct: 284 QFAQSFGVNKQLPDGFPPGTLTAFNVASDGSI-VGRYSNGKVNVLGQVILSSFANPNGLQ 342 Query: 186 SRGENLYVETAASGTPNPNTPGTNGAGALWQGYVETSNVNVVEELVNMIQTQRAYEINSK 245 + G+N +VETA SG + PG++G G++ +E SNV++ ELVNMI QR Y+ N++ Sbjct: 343 NIGDNQWVETAESGVALTSAPGSSGLGSVQSARIEESNVDLTAELVNMITAQRYYQANAQ 402 Query: 246 AITTSDQMLAKISQL 260 I T DQ+L + L Sbjct: 403 TIKTQDQILQTLVNL 417 Score = 79.7 bits (195), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 46/127 (36%), Positives = 71/127 (55%), Gaps = 12/127 (9%) Query: 10 TGLDAQQTQLDVISNNLANVSTNGFKRSRAVFEDLLYQTVRQPGAQSSQQTQLPSGLQIG 69 +GL+A L+ I NN+AN T GFK+S+ F D+ T+ GA QIG Sbjct: 8 SGLNAASKSLEAIGNNVANSGTVGFKQSQVQFADIYASTLSGSGAA-----------QIG 56 Query: 70 TGVRPVATERIFTQGNVNQTNNDKDLAIQGNGFFQILLPDGTTAYTRDGSFQTDNQGQLV 129 G + ++F+QGN+ +NN D+AI G+GFF+ + GT +Y R+G F+ +G + Sbjct: 57 IGTQIARVAQLFSQGNITASNNPLDMAINGDGFFR-MSSGGTISYARNGQFELSKEGFIQ 115 Query: 130 TSSGYTL 136 ++SG L Sbjct: 116 SASGARL 122 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.311 0.127 0.353 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 424,009 Number of extensions: 15996 Number of successful extensions: 44 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 38 Number of HSP's successfully gapped: 4 Length of query: 260 Length of database: 1,000,347 Length adjustment: 80 Effective length of query: 180 Effective length of database: 736,747 Effective search space: 132614460 Effective search space used: 132614460 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: 128 (53.9 bits)