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= 0001.2653.p (299 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... 431 e-122 gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 196 2e-51 gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease ... 99 3e-22 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 98 1e-21 gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 75 9e-15 >gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 431 bits (1107), Expect = e-122, Method: Compositional matrix adjust. Identities = 256/298 (85%), Positives = 274/298 (91%), Gaps = 7/298 (2%) Query: 1 MTALAYCVLALGLLLALGPLYLILCSASVSSQQWLTQGMPFTPGTALLHNLHEVAQRIDL 60 MTALAYCVL LGLLLALGPLYLILCSASV+SQ W++QGMP TPGTALL NL EVAQRIDL Sbjct: 8 MTALAYCVLGLGLLLALGPLYLILCSASVTSQAWISQGMPLTPGTALLENLREVAQRIDL 67 Query: 61 GRYLFNSLLVASLVVAGKLLLSSVTAFAVTYFQPRCRGLILALLFSALLLPLEVRIVPTY 120 RYLFNSLLVASLVV+GKLLLSSVTAFAV+YF+PRCRGLIL LLFSALLLPLEVRIVPTY Sbjct: 68 WRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSALLLPLEVRIVPTY 127 Query: 121 AAASDLFEPLRALLEATGIDGVLHDLLGLHIVPSISLINTYAGLSLPLVASATGTFLFLQ 180 AAASDL EPLR+LL+A DL G VPSISL+NTYAGLSLPLVASATGTFLFLQ Sbjct: 128 AAASDLLEPLRSLLQAL-------DLSGQQAVPSISLVNTYAGLSLPLVASATGTFLFLQ 180 Query: 181 FYRTIPPELVEAARIDGTGPWRFFVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSH 240 FYRTIPPELVEAARIDG GPWRF+VDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSH Sbjct: 181 FYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSH 240 Query: 241 DQMRTITLAMASFIPIEAGQMPEWNLLMAAALVAIVIPALFVVATQRWFVKGIIGTEK 298 +QMRTITLAMASF+P+E+GQMP+WNLLMAAAL AI +PA+FVVA QRWFVKGI+GTEK Sbjct: 241 EQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKGIVGTEK 298 >gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 196 bits (497), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 112/288 (38%), Positives = 161/288 (55%), Gaps = 38/288 (13%) Query: 19 PLYLILCSASVSSQQWLTQGMPFTPGTALLHNLHEVAQRIDLGR--------YLFNSLLV 70 PLY+ +++ S++Q + PG ++N V + G+ L+ SL Sbjct: 26 PLYVAFVASTQSAEQSALSPLSLAPGGEFMNNYSTVLFKGAAGQVTAPPVLHMLWVSLAT 85 Query: 71 ASLVVAGKLLLSSVTAFAVTYFQPRCRGLILALLFSALLLPLEVRIVPTYAAASDLFEPL 130 A ++ GK+ +S ++AFA+ YF+ RGL ++F L+LP+EVRI PTY SDL Sbjct: 86 ALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVRITPTYQVVSDL---- 141 Query: 131 RALLEATGIDGVLHDLLGLHIVPSISLINTYAGLSLPLVASATGTFLFLQFYRTIPPELV 190 ++N+YAGLS+PL+ASAT TFLF QF+ T+P EL Sbjct: 142 -------------------------GMLNSYAGLSVPLIASATATFLFRQFFLTVPDELA 176 Query: 191 EAARIDGTGPWRFFVDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSHDQMRTITLAM 250 EAARIDG GP RF D+L PLS+TN AL I+FI W Y+WPL+I + M I + + Sbjct: 177 EAARIDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGI 236 Query: 251 ASFIPIEAGQMPEWNLLMAAALVAIVIPALFVVATQRWFVKGIIGTEK 298 + I EWNL+MA ++A++ P L VV Q+WFVKG++ +EK Sbjct: 237 KTLIS-GGDSAVEWNLVMATMILAMLPPGLVVVVMQKWFVKGLVDSEK 283 >gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 276 Score = 99.4 bits (246), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 64/247 (25%), Positives = 119/247 (48%), Gaps = 31/247 (12%) Query: 48 LHNLHEVAQRIDLGRYLFNSLLVASLVVAGKLLLSSVTAFAVTYFQPRCRGLILALLFSA 107 L N Q RY N+ L+ ++++A +L+L+++ A+A F R ++ L+ Sbjct: 56 LQNFVNAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQ 115 Query: 108 LLLPLEVRIVPTYAAASDLFEPLRALLEATGIDGVLHDLLGLHIVPSISLINTYAGLSLP 167 L++ ++ IV Y +LLGL +T + LP Sbjct: 116 LMVMPDILIVENYQT---------------------MNLLGLR--------DTILSIGLP 146 Query: 168 LVASATGTFLFLQFYRTIPPELVEAARIDGTGPWRFFVDILLPLSKTNFAALGAIVFIST 227 ASA G FL Q ++T+P EL EAA ++G W+ + + +PL++ + A G + + Sbjct: 147 YFASAFGIFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLARPIYIAFGLVSVSTH 206 Query: 228 WKDYMWPLVITSHDQMRTITLAMASFIPIEAGQMPEWNLLMAAALVAIVIPALFVVATQR 287 W +++WPL++T+ + R +T+ + F + G +W+++ AA L+ L + QR Sbjct: 207 WNNFLWPLIVTNSVESRPLTVGLQVFSSTDQGV--DWSIITAATLMTSAPLLLAFLLFQR 264 Query: 288 WFVKGII 294 FV+ + Sbjct: 265 QFVQSFM 271 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 97.8 bits (242), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 72/256 (28%), Positives = 117/256 (45%), Gaps = 35/256 (13%) Query: 46 ALLHNLHEVAQRIDLGRYLFNSLLVASLVVAGKLLLSSVTAFAVTYFQPRCRGLILALLF 105 A+L N E + Y +NS L+ V G + L+++ FA++ +Q R ++ A Sbjct: 59 AMLENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFV 118 Query: 106 SALLLPLEVRIVPTYAAASDLFEPLRALLEATGIDGVLHDLLGLHIVPSISLINTYAGLS 165 + +P ++ ++P + DL S+ L NT G+ Sbjct: 119 ACNFVPQQILMIP------------------------VRDL-----SLSLGLFNTITGMM 149 Query: 166 LPLVASATG--TFLFLQFYRTIPPELVEAARIDGTGPWRFFVDILLPLSKTNFAALGAIV 223 L +A TG T F + +P E++EAARI+G W F I+LPL + AAL +V Sbjct: 150 LFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPALAALAVLV 209 Query: 224 FISTWKDYMWPLVITSHDQMRTITLAMASFIPIEAGQMPEWNLLMAAALVAIVIPALFVV 283 F W DY W LV+T D + IT+ +A+ + WNL+ A +++A + + Sbjct: 210 FTFVWNDYFWALVLTQGDDVAPITVGVAA---LRGQWTTAWNLVSAGSILAALPSVILFF 266 Query: 284 ATQRWFVKGI-IGTEK 298 Q+ FV G+ G K Sbjct: 267 VMQKQFVAGLTFGASK 282 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 74.7 bits (182), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 50/150 (33%), Positives = 78/150 (52%), Gaps = 11/150 (7%) Query: 149 LHIVPSISLINTYAGLSLPLVASATG----TFLFLQFYRTIPPELVEAARIDGTGPWRFF 204 L +V ++ LINT +L LV +A G + +F R IP EL +AAR DG G F Sbjct: 151 LQLVVALDLINTRT--ALVLVYTAQGLPLAVMILSEFMRQIPGELKDAARCDGVGELSIF 208 Query: 205 VDILLPLSKTNFAALGAIVFISTWKDYMWPLVITSHDQMRTITLAMASFIPIEAGQMP-E 263 ++LPL + A + I W D +PL++ + RT+TL + FI GQ + Sbjct: 209 FRVILPLLRPAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQQFI----GQYATD 264 Query: 264 WNLLMAAALVAIVIPALFVVATQRWFVKGI 293 WN ++AA +A++ L +A R ++G+ Sbjct: 265 WNSVLAALSMAVIPVLLLYMAFSRQLIRGL 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 0.328 0.141 0.426 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: 750,049 Number of extensions: 27901 Number of successful extensions: 157 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 152 Number of HSP's successfully gapped: 8 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 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)