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= 0001.0099.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transp... 588 e-169 gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 197 1e-51 gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease ... 101 6e-23 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 100 1e-22 gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 72 6e-14 >gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 588 bits (1516), Expect = e-169, Method: Compositional matrix adjust. Identities = 297/298 (99%), Positives = 297/298 (99%) Query: 1 MVERHPRMTALAYCVLGLGLLLALGPLYLILCSASVTSQVWISQGMPLTPGTALLENLRE 60 MVERHPRMTALAYCVLGLGLLLALGPLYLILCSASVTSQ WISQGMPLTPGTALLENLRE Sbjct: 1 MVERHPRMTALAYCVLGLGLLLALGPLYLILCSASVTSQAWISQGMPLTPGTALLENLRE 60 Query: 61 VAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSALLLPLE 120 VAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSALLLPLE Sbjct: 61 VAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSALLLPLE 120 Query: 121 VRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATGTFLFLQ 180 VRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATGTFLFLQ Sbjct: 121 VRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATGTFLFLQ 180 Query: 181 FYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSH 240 FYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSH Sbjct: 181 FYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSH 240 Query: 241 EQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKGIVGTEK 298 EQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKGIVGTEK Sbjct: 241 EQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKGIVGTEK 298 >gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 197 bits (500), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 121/306 (39%), Positives = 177/306 (57%), Gaps = 31/306 (10%) Query: 1 MVERHPRMTALAYCVLGLGLLLALGPLYLILCSASVTSQVWISQGMPLTPGTALLENLRE 60 M+ER P + L++ VL LG+L+ PLY+ +++ +++ + L PG + N Sbjct: 1 MIERRPILDFLSHVVLVLGVLIVFFPLYVAFVASTQSAEQSALSPLSLAPGGEFMNNYST 60 Query: 61 V-----AQRID---LWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLF 112 V A ++ + L+ SL A ++ GK+ +S ++AFA+ YFR RGL ++F Sbjct: 61 VLFKGAAGQVTAPPVLHMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF 120 Query: 113 SALLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASA 172 L+LP+EVRI PTY SDL ++N+YAGLS+PL+ASA Sbjct: 121 VTLMLPVEVRITPTYQVVSDL----------------------GMLNSYAGLSVPLIASA 158 Query: 173 TGTFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYM 232 T TFLF QF+ T+P EL EAARIDGAGP RF D+L PLS+TN AL I+FI W Y+ Sbjct: 159 TATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYL 218 Query: 233 WPLVITSHEQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKG 292 WPL+I + M I + + + + + +WNL+MA + A+ P + VV Q+WFVKG Sbjct: 219 WPLIIATDTSMYPIGIGIKTLISGGDSAV-EWNLVMATMILAMLPPGLVVVVMQKWFVKG 277 Query: 293 IVGTEK 298 +V +EK Sbjct: 278 LVDSEK 283 >gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 276 Score = 101 bits (252), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 123/240 (51%), Gaps = 24/240 (10%) Query: 55 LENLREVAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSA 114 L+N Q RY N+ L+ +++++ +L+L+++ A+A + F R ++ +L+ Sbjct: 56 LQNFVNAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQ 115 Query: 115 LLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATG 174 L++ ++ IV Y Q ++L G L +T + LP ASA G Sbjct: 116 LMVMPDILIVENY--------------QTMNLLG--------LRDTILSIGLPYFASAFG 153 Query: 175 TFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWP 234 FL Q ++T+P EL EAA ++GA W+ + + +PL++ + A G + + W +++WP Sbjct: 154 IFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLARPIYIAFGLVSVSTHWNNFLWP 213 Query: 235 LVITSHEQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKGIV 294 L++T+ + R +T+ + F + G W+++ AA L A + + QR FV+ + Sbjct: 214 LIVTNSVESRPLTVGLQVFSSTDQGV--DWSIITAATLMTSAPLLLAFLLFQRQFVQSFM 271 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 118/250 (47%), Gaps = 30/250 (12%) Query: 53 ALLENLREVAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLF 112 A+LEN RE + Y +NS L+ V G + L+++ FA+S ++ R ++ Sbjct: 59 AMLENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFV 118 Query: 113 SALLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASA 172 + +P ++ ++P DLS S+ L NT G+ L +A Sbjct: 119 ACNFVPQQILMIPVR-----------------DLS-----LSLGLFNTITGMMLFHIAMQ 156 Query: 173 TG--TFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKD 230 TG T F + +P E++EAARI+GA W + I+LPL + AAL +VF W D Sbjct: 157 TGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWND 216 Query: 231 YMWPLVITSHEQMRTITLAMASFLPVESGQ-MPQWNLLMAAALAAIAVPAVFVVAAQRWF 289 Y W LV+T + + IT+ +A+ GQ WNL+ A ++ A + Q+ F Sbjct: 217 YFWALVLTQGDDVAPITVGVAAL----RGQWTTAWNLVSAGSILAALPSVILFFVMQKQF 272 Query: 290 VKGIV-GTEK 298 V G+ G K Sbjct: 273 VAGLTFGASK 282 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 72.0 bits (175), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 74/283 (26%), Positives = 123/283 (43%), Gaps = 26/283 (9%) Query: 13 YCVLGLGLLLALGPLYLILCSASVTSQVWISQGMPL-TPGTALLENLREVAQRIDLWRYL 71 + VL L ++AL P+ LIL ++ T M L T T ++V Y Sbjct: 36 HTVLCLYAVIALFPIALILINSVKTRNAIFEGPMALPTAETLTFAGFQKVLAGTHFLLYF 95 Query: 72 FNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSALLLPLEVRIVPTYAAAS 131 NSL V + +L ++ A+A++ +R + + +++P+ + V Sbjct: 96 GNSLAVTVAALFLIVLFGAMAAWALTEYRFFGNRALNFFIAIGIMIPIRLGTVS------ 149 Query: 132 DLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATGTFLFLQFYRTIPPELVE 191 + L+ ALDL + +LV Y LPL + +F R IP EL + Sbjct: 150 -----ILQLVVALDLINTRT----ALVLVYTAQGLPL-----AVMILSEFMRQIPGELKD 195 Query: 192 AARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSHEQMRTITLAMA 251 AAR DG G + ++LPL + A + I W D +PL++ E RT+TL + Sbjct: 196 AARCDGVGELSIFFRVILPLLRPAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQ 255 Query: 252 SFLPVESGQM-PQWNLLMAAALAAIAVPAVFVVAAQRWFVKGI 293 F+ GQ WN ++AA A+ + +A R ++G+ Sbjct: 256 QFI----GQYATDWNSVLAALSMAVIPVLLLYMAFSRQLIRGL 294 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 0.138 0.415 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: 704,028 Number of extensions: 23445 Number of successful extensions: 146 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 8 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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: 130 (54.7 bits)