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= 0001.2391.p (539 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310145|ref|YP_003774237.1| general secretion pathway prote... 751 0.0 gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum ser... 129 6e-31 gi|300310151|ref|YP_003774243.1| twitching mobility PilT protein... 83 4e-17 gi|300313098|ref|YP_003777190.1| Tfp pilus assembly protein, pil... 77 4e-15 >gi|300310145|ref|YP_003774237.1| general secretion pathway protein E [Herbaspirillum seropedicae SmR1] Length = 541 Score = 751 bits (1940), Expect = 0.0, Method: Compositional matrix adjust. Identities = 369/513 (71%), Positives = 426/513 (83%), Gaps = 4/513 (0%) Query: 30 GLGILSNSGSLEARPEEKKLLCLLGDGRLLVVAGQAFNPHVLSYRGRLERMGHPFREVQA 89 G ILS+SG LEA EE+KLLCLL DGRLLVVAGQ NPHV SY GRLER+G P++ V Sbjct: 28 GAQILSHSGMLEAGQEERKLLCLLADGRLLVVAGQELNPHVQSYIGRLERLGQPYQLVPG 87 Query: 90 SIELIRRINSN----GLPLQAERNQEHSMMQVTAKEMLNKACRVRASDIHLRVRKNCTEI 145 I +I R+N G P ER+QEH+MMQVTAK++LNKACR RASDIHLRVRKNCTEI Sbjct: 88 DIAVIYRMNRISTRIGGPQPEERHQEHTMMQVTAKDLLNKACRSRASDIHLRVRKNCTEI 147 Query: 146 YFRIHNDLLPVGGQTREYGERLLATLYGAMTSVSDSSYKPTERQDASIADRDKLPPELYG 205 YFRIHNDL+ VGGQTREYGERLLATLYGAMTSVSDSSYKPTERQDA+IADRDKLPP LYG Sbjct: 148 YFRIHNDLVQVGGQTREYGERLLATLYGAMTSVSDSSYKPTERQDAAIADRDKLPPALYG 207 Query: 206 VRIATVPTNEGSLMVLRLLYNDVGENLDLGSLGFSAQQVSDLQRLKEQPIGMNIISGPTG 265 VRIATVPT+EGS+MVLRLLYND G+N+DL LGFS S LQ+LKEQP+GMNIISGPTG Sbjct: 208 VRIATVPTSEGSVMVLRLLYNDAGDNIDLRPLGFSEAHASALQKLKEQPVGMNIISGPTG 267 Query: 266 SGKSTTLQRVLNGQILEGEGKLHVLTIEDPVEYPIEGAVQTTITNAHTEEERSRLFSAAI 325 SGKSTTLQRVL G+I+E EGKLHVLTIEDPVEYPI+GAVQT +TNA +EEERSR F+AAI Sbjct: 268 SGKSTTLQRVLTGEIIEAEGKLHVLTIEDPVEYPIDGAVQTAVTNAGSEEERSRAFAAAI 327 Query: 326 SNAMRLDPDTIMIGEIRDRASAQNALRASMTGHQIWTTLHANSALAIVDRLIDLGLQQSL 385 SNAMRLDPDTIMIGE+RDRA+AQNALRASMTGHQ+WTT+HANSALAI+DRL+DLGL SL Sbjct: 328 SNAMRLDPDTIMIGEVRDRATAQNALRASMTGHQVWTTVHANSALAIIDRLLDLGLPASL 387 Query: 386 VLDHTVITGLISQRLVKQLCPHCKRPLLAHLDQVPAALLARLRQVIPDRLQDVCISGPGC 445 V DH V+TGLISQRLVK+LCP C++PL A + +PAA+LAR+RQ + L VC++GPGC Sbjct: 388 VADHAVVTGLISQRLVKKLCPCCRQPLAARPEVLPAAVLARVRQAVSPSLDGVCVTGPGC 447 Query: 446 EFCSHRGTIGRTVVAEVIVPDESFFRHLRMGEKCQAWRHWKESLGGRSIADHALDKVVAG 505 E C+ +GT+GRTVVAE+I+PD+ FFR +R GEK +A ++W + LGG+++ HA+DKV G Sbjct: 448 EHCAGQGTVGRTVVAEIIIPDDHFFRLVRQGEKSEALQYWIDELGGQTMLAHAIDKVACG 507 Query: 506 LIDPAMAEKVVGHFQGPVAASVHHLHVVEADGA 538 IDP MAEKVVGH A L VVE A Sbjct: 508 EIDPRMAEKVVGHLIYERAPVAPFLTVVEGRSA 540 >gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum seropedicae SmR1] Length = 377 Score = 129 bits (324), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 90/258 (34%), Positives = 139/258 (53%), Gaps = 35/258 (13%) Query: 207 RIATVPTNEGSLMVLRLLYNDVGENLDLGSLGFSAQQVSDLQRLKEQPIGMNIISGPTGS 266 R++T+PT G +VLR+L + L L LG+ Q+ LQ+ +P GM +++GPTGS Sbjct: 101 RVSTLPTQFGEKIVLRILDTEQA-TLALEQLGYEPAQLQALQQAIARPHGMVLMTGPTGS 159 Query: 267 GKSTTLQRVLNGQILEGEGKLHVLTIEDPVEYPIEGAVQTTITNAHTEEERSRL-FSAAI 325 GK+ +L L Q L G +++ T EDPVE + G Q +I ER+ L F+ A+ Sbjct: 160 GKTVSLYACL--QRLNRPG-INIATAEDPVEINLPGINQVSI------NERAGLNFAVAL 210 Query: 326 SNAMRLDPDTIMIGEIRDRASAQNALRASMTGHQIWTTLHANSALAIVDRLIDLGLQQSL 385 +R DPD +M+GEIRD +A A++A+ TGH + +TLH N A A + RL+++G+ Sbjct: 211 RAFLRQDPDVLMVGEIRDLDTADIAIKAAQTGHLVLSTLHTNDAPATLTRLLNMGVPAYN 270 Query: 386 VLDHTVITGLISQRLVKQLCPHCKRPLLAHLDQVPAALLARLRQVIPDRLQDVCISGPGC 445 + ++ +++QRLV++LC C+RP R GC Sbjct: 271 I--AASVSLIVAQRLVRRLC-SCRRP---------------------ARDASGSFVPHGC 306 Query: 446 EFCSHRGTIGRTVVAEVI 463 CSH G GRT + +V+ Sbjct: 307 PACSHTGYRGRTGIYQVM 324 >gi|300310151|ref|YP_003774243.1| twitching mobility PilT protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 43/128 (33%), Positives = 78/128 (60%), Gaps = 4/128 (3%) Query: 256 GMNIISGPTGSGKSTTLQRVLNGQILEGEGKLHVLTIEDPVEYPIEGAVQTTITNAHTEE 315 G+ +++GPTG+GK+TT+ +L+ + + H++TIE+P+EY ++ Q+ I+ Sbjct: 133 GIILVTGPTGAGKTTTIASMLD--YINASRRGHIITIEEPIEYELQRK-QSMISQKEVPT 189 Query: 316 ERSRLFSAAISNAMRLDPDTIMIGEIRDRASAQNALRASMTGHQIWTTLHANSALAIVDR 375 + + FS+ + A+R PD +M+GEIRD +A L A +GH + TLH +SA+ + + Sbjct: 190 D-TESFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLATLHTSSAVRAITK 248 Query: 376 LIDLGLQQ 383 L+ Q+ Sbjct: 249 LLGFFPQE 256 >gi|300313098|ref|YP_003777190.1| Tfp pilus assembly protein, pilus retraction ATPase PilT protein [Herbaspirillum seropedicae SmR1] Length = 351 Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 81/266 (30%), Positives = 124/266 (46%), Gaps = 36/266 (13%) Query: 122 MLNKACRVRASDIHLRVRKNCTEI--YFRIHNDLLPVGGQTREYGERLLATLYGAMTSVS 179 +L A R +ASD+HL C + R+H L V Q G +L L M + Sbjct: 6 LLAFAVRNQASDLHL-----CAGMPPLLRVHGALRRVNLQA-PTGPQLQQWLQALMPAAL 59 Query: 180 DSSYKPTERQDASIADRDKLPPELYGV---RIATVPTNEGSLMVLRLLYNDVGENLDLGS 236 Y D +I EL + R+ G + +R L + LG+ Sbjct: 60 HPRYAQGRECDFAI--------ELAALGRFRVHAFLRQGGPAVAIRHLGREPPTLAQLGA 111 Query: 237 LGFSAQQVSDLQRLKEQPIGMNIISGPTGSGKSTTLQRVLNGQILEGEGKLHVLTIEDPV 296 A+ L E+ G+ +++GPTG+GKS+TL ++ L LH+LTIEDP+ Sbjct: 112 PPLCAE-------LAERAGGLVLVTGPTGAGKSSTLAAMIRH--LNETRALHILTIEDPI 162 Query: 297 EY---PIEGAVQTTITNAHTEEERSRLFSAAISNAMRLDPDTIMIGEIRDRASAQNALRA 353 E+ P + HT + AA+ A+R DPD +++GE+RD + + AL A Sbjct: 163 EFIHTPQRALISQRELGTHTADL-----PAALRAALRADPDVLLVGELRDADTIRLALTA 217 Query: 354 SMTGHQIWTTLHANSALAIVDRLIDL 379 + TGH + TLHA SA V+R++D+ Sbjct: 218 AETGHLVLGTLHAASAARTVERMLDV 243 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 0.319 0.135 0.393 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: 1,647,937 Number of extensions: 67886 Number of successful extensions: 311 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 304 Number of HSP's successfully gapped: 4 Length of query: 539 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 449 Effective length of database: 1,193,720 Effective search space: 535980280 Effective search space used: 535980280 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 133 (55.8 bits)