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= 0001.3704.p (283 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 509 e-145 gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transp... 167 1e-42 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 117 8e-28 gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease ... 107 1e-24 gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 91 1e-19 >gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 509 bits (1311), Expect = e-145, Method: Compositional matrix adjust. Identities = 262/283 (92%), Positives = 272/283 (96%) Query: 1 MIERRPILDFLGHVVLVLGVLIVVFPLYVAFVASTQTAEQSALSPLSLVPGGELLNNYSA 60 MIERRPILDFL HVVLVLGVLIV FPLYVAFVASTQ+AEQSALSPLSL PGGE +NNYS Sbjct: 1 MIERRPILDFLSHVVLVLGVLIVFFPLYVAFVASTQSAEQSALSPLSLAPGGEFMNNYST 60 Query: 61 ILFKGTSGQVSAPPVLHMLWVSLVTALIIAIGKIAISMLSAFAIVYFRFPGRGLFFWMIF 120 +LFKG +GQV+APPVLHMLWVSL TALIIAIGKI+ISMLSAFAIVYFRFPGRGLFFWMIF Sbjct: 61 VLFKGAAGQVTAPPVLHMLWVSLATALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIF 120 Query: 121 VTLMLPVEVRITPTYQVVSDLGLLNSYAGLSLPLIASATATFLFRQFFLTVPDELAEAAR 180 VTLMLPVEVRITPTYQVVSDLG+LNSYAGLS+PLIASATATFLFRQFFLTVPDELAEAAR Sbjct: 121 VTLMLPVEVRITPTYQVVSDLGMLNSYAGLSVPLIASATATFLFRQFFLTVPDELAEAAR 180 Query: 181 IDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIAATDPGMYPIGIGIKTLI 240 IDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLI ATD MYPIGIGIKTLI Sbjct: 181 IDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLI 240 Query: 241 SGGDSAVEWNLVMAAMVLAMLPPGLVVVLMQKWFVKGLVDSEK 283 SGGDSAVEWNLVMA M+LAMLPPGLVVV+MQKWFVKGLVDSEK Sbjct: 241 SGGDSAVEWNLVMATMILAMLPPGLVVVVMQKWFVKGLVDSEK 283 >gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 167 bits (422), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 124/306 (40%), Positives = 179/306 (58%), Gaps = 31/306 (10%) Query: 1 MIERRPILDFLGHVVLVLGVLIVVFPLYVAFVASTQTAEQSALSPLSLVPGGELLNNYSA 60 M+ER P + L + VL LG+L+ + PLY+ +++ T++ + L PG LL N Sbjct: 1 MVERHPRMTALAYCVLGLGLLLALGPLYLILCSASVTSQAWISQGMPLTPGTALLEN--- 57 Query: 61 ILFKGTSGQVSAPPVLHMLWVSLVTALIIAIGKIAISMLSAFAIVYFRFPGRGLFFWMIF 120 + + ++ + L+ SL+ A ++ GK+ +S ++AFA+ YFR RGL ++F Sbjct: 58 --LREVAQRID---LWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLF 112 Query: 121 VTLMLPVEVRITPTYQVVSDL----------------------GLLNSYAGLSLPLIASA 158 L+LP+EVRI PTY SDL L+N+YAGLSLPL+ASA Sbjct: 113 SALLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASA 172 Query: 159 TATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYL 218 T TFLF QF+ T+P EL EAARIDGAGP RF D+L PLS+TN AL I+FI W Y+ Sbjct: 173 TGTFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYM 232 Query: 219 WPLIAATDPGMYPIGIGIKTLISGGDSAV-EWNLVMAAMVLAMLPPGLVVVLMQKWFVKG 277 WPL+ + M I + + + + + +WNL+MAA + A+ P + VV Q+WFVKG Sbjct: 233 WPLVITSHEQMRTITLAMASFLPVESGQMPQWNLLMAAALAAIAVPAVFVVAAQRWFVKG 292 Query: 278 LVDSEK 283 +V +EK Sbjct: 293 IVGTEK 298 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 117 bits (294), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 87/282 (30%), Positives = 135/282 (47%), Gaps = 14/282 (4%) Query: 2 IER-RPILDFLGHVVLVLGVLIVVFPLYVAFVASTQTAEQSALSPLSLVPGG-ELLNNYS 59 IE+ +PI L L + +LI + P+ A V S ++ ++ P +L NY Sbjct: 6 IEKWKPINRALYRASLPVALLIWLLPMLAALVTSIRSNDELMAGNYWGWPQDFAMLENYR 65 Query: 60 AILFKGTSGQVSAPPVLHMLWVSLVTALIIAIGKIAISMLSAFAIVYFRFPGRGLFFWMI 119 L +A P+LH W S + + IG I+++ ++ FA+ ++F G + F Sbjct: 66 EAL--------TASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATF 117 Query: 120 FVTLMLPVEVRITPTYQVVSDLGLLNSYAGLSLPLIASAT--ATFLFRQFFLTVPDELAE 177 +P ++ + P + LGL N+ G+ L IA T T R F +P E+ E Sbjct: 118 VACNFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIE 177 Query: 178 AARIDGAGPLRFLKDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIAATDPGMYPIGIGIK 237 AARI+GA ++ PL R + AL V++F + WN Y W L+ + PI +G+ Sbjct: 178 AARIEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVA 237 Query: 238 TLISGGDSAVEWNLVMAAMVLAMLPPGLVVVLMQKWFVKGLV 279 L G WNLV A +LA LP ++ +MQK FV GL Sbjct: 238 AL--RGQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLT 277 >gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 276 Score = 107 bits (267), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 69/211 (32%), Positives = 115/211 (54%), Gaps = 2/211 (0%) Query: 71 SAPPVLHMLWVSLVTALIIAIGKIAISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVR 130 +AP + L L+ +I+A ++ ++ L+A+A F F G + F ++ + LM+ ++ Sbjct: 65 AAPFPRYFLNTFLLVTMILA-AQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMPDIL 123 Query: 131 ITPTYQVVSDLGLLNSYAGLSLPLIASATATFLFRQFFLTVPDELAEAARIDGAGPLRFL 190 I YQ ++ LGL ++ + LP ASA FL RQ F TVP EL EAA ++GA + L Sbjct: 124 IVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAWQIL 183 Query: 191 KDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIAATDPGMYPIGIGIKTLISGGDSAVEWN 250 V PL+R IA ++ WN +LWPLI P+ +G++ + S D V+W+ Sbjct: 184 MQVYVPLARPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQ-VFSSTDQGVDWS 242 Query: 251 LVMAAMVLAMLPPGLVVVLMQKWFVKGLVDS 281 ++ AA ++ P L +L Q+ FV+ + + Sbjct: 243 IITAATLMTSAPLLLAFLLFQRQFVQSFMRA 273 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/270 (27%), Positives = 122/270 (45%), Gaps = 11/270 (4%) Query: 13 HVVLVLGVLIVVFPLYVAFVASTQTAEQSALSPLSLVPGGELLNNYSAILFKGTSGQVSA 72 H VL L +I +FP+ + + S +T P++L P E L F G ++ Sbjct: 36 HTVLCLYAVIALFPIALILINSVKTRNAIFEGPMAL-PTAETLT------FAGFQKVLAG 88 Query: 73 PPVLHMLWVSLVTALIIAIGKIAISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVRIT 132 L SL + + ++A+A+ +RF G + I + +M+P+ + Sbjct: 89 THFLLYFGNSLAVTVAALFLIVLFGAMAAWALTEYRFFGNRALNFFIAIGIMIPIRLGTV 148 Query: 133 PTYQVVSDLGLLNSYAGLSLPLIASAT--ATFLFRQFFLTVPDELAEAARIDGAGPLRFL 190 Q+V L L+N+ L L A A + +F +P EL +AAR DG G L Sbjct: 149 SILQLVVALDLINTRTALVLVYTAQGLPLAVMILSEFMRQIPGELKDAARCDGVGELSIF 208 Query: 191 KDVLWPLSRTNVIALFVIMFIYGWNQYLWPLIAATDPGMYPIGIGIKTLISGGDSAVEWN 250 V+ PL R + + V I WN +PLI A + +G++ I G A +WN Sbjct: 209 FRVILPLLRPAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQQFI--GQYATDWN 266 Query: 251 LVMAAMVLAMLPPGLVVVLMQKWFVKGLVD 280 V+AA+ +A++P L+ + + ++GL Sbjct: 267 SVLAALSMAVIPVLLLYMAFSRQLIRGLTS 296 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 0.143 0.436 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: 822,369 Number of extensions: 33287 Number of successful extensions: 181 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 167 Number of HSP's successfully gapped: 9 Length of query: 283 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 199 Effective length of database: 1,222,130 Effective search space: 243203870 Effective search space used: 243203870 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)