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= 0022.0204.p (379 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum ser... 651 0.0 gi|300310145|ref|YP_003774237.1| general secretion pathway prote... 132 5e-32 gi|300310151|ref|YP_003774243.1| twitching mobility PilT protein... 97 2e-21 gi|300313098|ref|YP_003777190.1| Tfp pilus assembly protein, pil... 84 2e-17 >gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum seropedicae SmR1] Length = 377 Score = 651 bits (1680), Expect = 0.0, Method: Compositional matrix adjust. Identities = 317/368 (86%), Positives = 345/368 (93%) Query: 12 DDVPVVRLLHKLLADAVGMGASDLHFEPFEHLFRVRLRLDGVLHELAQPPLSLRDKLATR 71 DDVPVVRLL+KLLADAV MGASDLHFEPFEH RVRLR+DG+LHELAQPPLSL+DKLATR Sbjct: 10 DDVPVVRLLYKLLADAVSMGASDLHFEPFEHYCRVRLRIDGILHELAQPPLSLKDKLATR 69 Query: 72 LKILARLDIAEKRLPQDGKMRLALGTRTVDFRVSTLPTQFGEKIVLRILDTAQAALSISD 131 LKILARLDIAEKRLPQDGKMRLAL TRTVDFRVSTLPTQFGEKIVLRILDT QA L++ Sbjct: 70 LKILARLDIAEKRLPQDGKMRLALETRTVDFRVSTLPTQFGEKIVLRILDTEQATLALEQ 129 Query: 132 LGYEPAQQEALLQAISKPHGLVLMTGPTGSGKTVSLYACLQRLNQPGVNIATAEDPVEIN 191 LGYEPAQ +AL QAI++PHG+VLMTGPTGSGKTVSLYACLQRLN+PG+NIATAEDPVEIN Sbjct: 130 LGYEPAQLQALQQAIARPHGMVLMTGPTGSGKTVSLYACLQRLNRPGINIATAEDPVEIN 189 Query: 192 LPGINQVSINERAGLDFALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLSTL 251 LPGINQVSINERAGL+FA+ALRAFLRQDPDVLMVGEIRDL+TADIA+KA+QTGHLVLSTL Sbjct: 190 LPGINQVSINERAGLNFAVALRAFLRQDPDVLMVGEIRDLDTADIAIKAAQTGHLVLSTL 249 Query: 252 HTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRKLCRCRRPAGGTPATFVPHGCPAC 311 HTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVR+LC CRRPA +FVPHGCPAC Sbjct: 250 HTNDAPATLTRLLNMGVPAYNIAASVSLIVAQRLVRRLCSCRRPARDASGSFVPHGCPAC 309 Query: 312 NQTGFRGRTGIYQVMPVSAAMQSLILAQAGTLELGRQAQAEGIIDLRRAGLLKVLRGETS 371 + TG+RGRTGIYQVMPVSA MQSLI AQAGT ++ RQA+AEG+IDLRRAGLLK LRG+TS Sbjct: 310 SHTGYRGRTGIYQVMPVSATMQSLIQAQAGTQDIARQARAEGVIDLRRAGLLKALRGDTS 369 Query: 372 VGEILACT 379 +GE+LA T Sbjct: 370 LGEVLAST 377 >gi|300310145|ref|YP_003774237.1| general secretion pathway protein E [Herbaspirillum seropedicae SmR1] Length = 541 Score = 132 bits (332), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 89/257 (34%), Positives = 138/257 (53%), Gaps = 33/257 (12%) Query: 103 RVSTLPTQFGEKIVLRIL-DTAQAALSISDLGYEPAQQEALLQAISKPHGLVLMTGPTGS 161 R++T+PT G +VLR+L + A + + LG+ A AL + +P G+ +++GPTGS Sbjct: 209 RIATVPTSEGSVMVLRLLYNDAGDNIDLRPLGFSEAHASALQKLKEQPVGMNIISGPTGS 268 Query: 162 GKTVSLYACL--QRLNQPG-VNIATAEDPVEINLPGINQVSI-----NERAGLDFALALR 213 GK+ +L L + + G +++ T EDPVE + G Q ++ E FA A+ Sbjct: 269 GKSTTLQRVLTGEIIEAEGKLHVLTIEDPVEYPIDGAVQTAVTNAGSEEERSRAFAAAIS 328 Query: 214 AFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLSTLHTNDAPATLTRLLNMGVPAYNI 273 +R DPD +M+GE+RD TA A++AS TGH V +T+H N A A + RLL++G+PA + Sbjct: 329 NAMRLDPDTIMIGEVRDRATAQNALRASMTGHQVWTTVHANSALAIIDRLLDLGLPASLV 388 Query: 274 A--ASVSLIVAQRLVRKLCR-CRRPAGGTPATF---------------------VPHGCP 309 A A V+ +++QRLV+KLC CR+P P GC Sbjct: 389 ADHAVVTGLISQRLVKKLCPCCRQPLAARPEVLPAAVLARVRQAVSPSLDGVCVTGPGCE 448 Query: 310 ACNQTGFRGRTGIYQVM 326 C G GRT + +++ Sbjct: 449 HCAGQGTVGRTVVAEII 465 >gi|300310151|ref|YP_003774243.1| twitching mobility PilT protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 56/133 (42%), Positives = 82/133 (61%), Gaps = 7/133 (5%) Query: 136 PAQQEALLQAISKPHGLVLMTGPTGSGKTVSLYACLQRLNQPGV-NIATAEDPVEINLPG 194 P+ + +L+A G++L+TGPTG+GKT ++ + L +N +I T E+P+E L Sbjct: 121 PSYVKTVLEATK---GIILVTGPTGAGKTTTIASMLDYINASRRGHIITIEEPIEYELQR 177 Query: 195 INQVSINERAGLD---FALALRAFLRQDPDVLMVGEIRDLETADIAVKASQTGHLVLSTL 251 + + D F+ LR LRQ PDVLMVGEIRD +TAD + A ++GHLVL+TL Sbjct: 178 KQSMISQKEVPTDTESFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLATL 237 Query: 252 HTNDAPATLTRLL 264 HT+ A +T+LL Sbjct: 238 HTSSAVRAITKLL 250 >gi|300313098|ref|YP_003777190.1| Tfp pilus assembly protein, pilus retraction ATPase PilT protein [Herbaspirillum seropedicae SmR1] Length = 351 Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/196 (38%), Positives = 111/196 (56%), Gaps = 18/196 (9%) Query: 102 FRVSTLPTQFGEKIVLRILDTAQAALSISDLGYEPAQQEALLQAISKPHGLVLMTGPTGS 161 FRV Q G + +R L + +++ LG P E + GLVL+TGPTG+ Sbjct: 81 FRVHAFLRQGGPAVAIRHL--GREPPTLAQLGAPPLCAEL----AERAGGLVLVTGPTGA 134 Query: 162 GKTVSLYACLQRLNQP-GVNIATAEDPVE-INLPGINQVSINERAG--LDFALALRAFLR 217 GK+ +L A ++ LN+ ++I T EDP+E I+ P +S E D ALRA LR Sbjct: 135 GKSSTLAAMIRHLNETRALHILTIEDPIEFIHTPQRALISQRELGTHTADLPAALRAALR 194 Query: 218 QDPDVLMVGEIRDLETADIAVKASQTGHLVLSTLHTNDAPATLTRLLNMGVPAYN----- 272 DPDVL+VGE+RD +T +A+ A++TGHLVL TLH A T+ R+L++ PA Sbjct: 195 ADPDVLLVGELRDADTIRLALTAAETGHLVLGTLHAASAARTVERMLDV-FPAGEKEPAR 253 Query: 273 --IAASVSLIVAQRLV 286 +A S+ ++AQ L+ Sbjct: 254 AMLAESLQGVIAQTLL 269 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 0.322 0.137 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: 1,080,858 Number of extensions: 43199 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 4 Length of query: 379 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 292 Effective length of database: 1,207,925 Effective search space: 352714100 Effective search space used: 352714100 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 (21.9 bits) S2: 131 (55.1 bits)