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= 0027.0013.p (364 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310151|ref|YP_003774243.1| twitching mobility PilT protein... 608 e-175 gi|300313098|ref|YP_003777190.1| Tfp pilus assembly protein, pil... 171 6e-44 gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum ser... 106 4e-24 gi|300310145|ref|YP_003774237.1| general secretion pathway prote... 82 9e-17 >gi|300310151|ref|YP_003774243.1| twitching mobility PilT protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 608 bits (1569), Expect = e-175, Method: Compositional matrix adjust. Identities = 286/364 (78%), Positives = 331/364 (90%) Query: 1 MSNNPFRTRDLQQEILSLMKARQAFSDIHIEQNEIIMIKTPRGWIPVGERAVTIADMRPL 60 MSN+ F RDLQ+E+L+L+ + Q FSDIHIEQ++ +M+KTPRGW PV + V I + PL Sbjct: 1 MSNDLFLARDLQRELLALVNSSQTFSDIHIEQDQPLMLKTPRGWQPVHDMPVVIEQLAPL 60 Query: 61 LTAIDDDWEDKIVDKALDCPHVLEDWRLRCNIYRMERGNRVAVSMRRFPLQPLTLEQTGL 120 L+AID+DWEDKI+D ALDCP+VL +WRLRCNIYRM RG++VAVS+RRFPL+PL LE+TGL Sbjct: 61 LSAIDEDWEDKIIDGALDCPYVLGEWRLRCNIYRMARGSKVAVSIRRFPLEPLALERTGL 120 Query: 121 PVYVRTMMEATKGIILITGPTGAGKTTTIAAMLDYINTTRQGHIVTIEEPIEYELRRKQS 180 P YV+T++EATKGIIL+TGPTGAGKTTTIA+MLDYIN +R+GHI+TIEEPIEYEL+RKQS Sbjct: 121 PSYVKTVLEATKGIILVTGPTGAGKTTTIASMLDYINASRRGHIITIEEPIEYELQRKQS 180 Query: 181 IISQKEVPTDTASFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLATLHTS 240 +ISQKEVPTDT SFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLATLHTS Sbjct: 181 MISQKEVPTDTESFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLATLHTS 240 Query: 241 SAVRAITKLLSFFPQDQRNQRAATLADSLVGVIFQSLLPSEDGENHVMASEMVFNTYQQI 300 SAVRAITKLL FFPQ+QR QRAATLA+SLVGVIFQSLLPSEDGE+HVMASEMVFN QQI Sbjct: 241 SAVRAITKLLGFFPQEQRAQRAATLAESLVGVIFQSLLPSEDGEHHVMASEMVFNNNQQI 300 Query: 301 SPYMLDASKMHLIAEFMKRKEDNMSRNLNEVLLQLATKKSISARDALRVAYNRLELHDML 360 + ++ D +K+HLI +FMKRKEDNMSR+LNEVLLQL KKS+SARDALRVAYNRLELH+ML Sbjct: 301 AAFISDPAKLHLIGDFMKRKEDNMSRSLNEVLLQLVHKKSVSARDALRVAYNRLELHEML 360 Query: 361 NSKR 364 NS + Sbjct: 361 NSAK 364 >gi|300313098|ref|YP_003777190.1| Tfp pilus assembly protein, pilus retraction ATPase PilT protein [Herbaspirillum seropedicae SmR1] Length = 351 Score = 171 bits (434), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 101/240 (42%), Positives = 144/240 (60%), Gaps = 9/240 (3%) Query: 66 DDWEDKIVDKAL--------DCPHVLEDWRL-RCNIYRMERGNRVAVSMRRFPLQPLTLE 116 W ++ AL +C +E L R ++ R AV++R +P TL Sbjct: 48 QQWLQALMPAALHPRYAQGRECDFAIELAALGRFRVHAFLRQGGPAVAIRHLGREPPTLA 107 Query: 117 QTGLPVYVRTMMEATKGIILITGPTGAGKTTTIAAMLDYINTTRQGHIVTIEEPIEYELR 176 Q G P + E G++L+TGPTGAGK++T+AAM+ ++N TR HI+TIE+PIE+ Sbjct: 108 QLGAPPLCAELAERAGGLVLVTGPTGAGKSSTLAAMIRHLNETRALHILTIEDPIEFIHT 167 Query: 177 RKQSIISQKEVPTDTASFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLAT 236 ++++ISQ+E+ T TA + LR ALR PDVL+VGE+RD DT L A E+GHLVL T Sbjct: 168 PQRALISQRELGTHTADLPAALRAALRADPDVLLVGELRDADTIRLALTAAETGHLVLGT 227 Query: 237 LHTSSAVRAITKLLSFFPQDQRNQRAATLADSLVGVIFQSLLPSEDGENHVMASEMVFNT 296 LH +SA R + ++L FP ++ A LA+SL GVI Q+LLP+ DG V A E++ T Sbjct: 228 LHAASAARTVERMLDVFPAGEKEPARAMLAESLQGVIAQTLLPTADGRARVAAHELLVAT 287 >gi|300309699|ref|YP_003773791.1| ATPase PilB [Herbaspirillum seropedicae SmR1] Length = 377 Score = 106 bits (264), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 65/146 (44%), Positives = 92/146 (63%), Gaps = 12/146 (8%) Query: 113 LTLEQTGL-PVYVRTMMEATK---GIILITGPTGAGKTTTIAAMLDYINTTRQG-HIVTI 167 L LEQ G P ++ + +A G++L+TGPTG+GKT ++ A L +N R G +I T Sbjct: 125 LALEQLGYEPAQLQALQQAIARPHGMVLMTGPTGSGKTVSLYACLQRLN--RPGINIATA 182 Query: 168 EEPIEYELRR-KQSIISQKEVPTDTASFSSGLREALRQKPDVLMVGEIRDFDTADTVLHA 226 E+P+E L Q I+++ +F+ LR LRQ PDVLMVGEIRD DTAD + A Sbjct: 183 EDPVEINLPGINQVSINERA----GLNFAVALRAFLRQDPDVLMVGEIRDLDTADIAIKA 238 Query: 227 GESGHLVLATLHTSSAVRAITKLLSF 252 ++GHLVL+TLHT+ A +T+LL+ Sbjct: 239 AQTGHLVLSTLHTNDAPATLTRLLNM 264 >gi|300310145|ref|YP_003774237.1| general secretion pathway protein E [Herbaspirillum seropedicae SmR1] Length = 541 Score = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 53/162 (32%), Positives = 92/162 (56%), Gaps = 14/162 (8%) Query: 124 VRTMMEATKGIILITGPTGAGKTTTIAAML--DYINTTRQGHIVTIEEPIEYELRR--KQ 179 ++ + E G+ +I+GPTG+GK+TT+ +L + I + H++TIE+P+EY + + Sbjct: 249 LQKLKEQPVGMNIISGPTGSGKSTTLQRVLTGEIIEAEGKLHVLTIEDPVEYPIDGAVQT 308 Query: 180 SIISQKEVPTDTASFSSGLREALRQKPDVLMVGEIRDFDTADTVLHAGESGHLVLATLHT 239 ++ + + +F++ + A+R PD +M+GE+RD TA L A +GH V T+H Sbjct: 309 AVTNAGSEEERSRAFAAAISNAMRLDPDTIMIGEVRDRATAQNALRASMTGHQVWTTVHA 368 Query: 240 SSAVRAITKLLSF-FPQDQRNQRAATLADSLV--GVIFQSLL 278 +SA+ I +LL P A+ +AD V G+I Q L+ Sbjct: 369 NSALAIIDRLLDLGLP-------ASLVADHAVVTGLISQRLV 403 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 0.320 0.133 0.376 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: 1,002,199 Number of extensions: 39201 Number of successful extensions: 260 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 257 Number of HSP's successfully gapped: 4 Length of query: 364 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 278 Effective length of database: 1,212,660 Effective search space: 337119480 Effective search space used: 337119480 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: 131 (55.1 bits)