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= 0001.0255.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|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 560 e-161 gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease ... 148 4e-37 gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 113 2e-26 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 111 6e-26 gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease ... 107 9e-25 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 560 bits (1443), Expect = e-161, Method: Compositional matrix adjust. Identities = 274/283 (96%), Positives = 280/283 (98%) Query: 1 MFPMPIEKWKPLNRVLYRASLPVALLIWLLPMLTALVTSMRSNDELMAGNYWGWPQDFAM 60 MFPMPIEKWKP+NR LYRASLPVALLIWLLPML ALVTS+RSNDELMAGNYWGWPQDFAM Sbjct: 1 MFPMPIEKWKPINRALYRASLPVALLIWLLPMLAALVTSIRSNDELMAGNYWGWPQDFAM 60 Query: 61 LENYREALTGSPMLHYFWNSCLITIPSVVGAIALAAMAGFALSTYQFRGNTILFATFVAC 120 LENYREALT SPMLHYFWNSCLITIPSV+GAI+LAAMAGFALSTYQFRGNT+LFATFVAC Sbjct: 61 LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFATFVAC 120 Query: 121 NFVPQQILMIPVRDLTLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 NFVPQQILMIPVRDL+LSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR Sbjct: 121 NFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 Query: 181 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALR 240 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALR Sbjct: 181 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALR 240 Query: 241 GQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLTFGASKG 283 GQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLTFGASKG Sbjct: 241 GQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLTFGASKG 283 >gi|300313834|ref|YP_003777926.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 300 Score = 148 bits (374), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 86/264 (32%), Positives = 143/264 (54%), Gaps = 14/264 (5%) Query: 26 LIWLLPMLTALVTSMRSNDELMAGNYWGWPQDFAMLENYREALTGSPMLHYFWNSCLITI 85 +I L P+ L+ S+++ + + G + +++ L G+ L YF NS +T+ Sbjct: 44 VIALFPIALILINSVKTRNAIFEGPMALPTAETLTFAGFQKVLAGTHFLLYFGNSLAVTV 103 Query: 86 PSVVGAIALAAMAGFALSTYQFRGNTILFATFVACNFVPQQILMIPVR-------DLTLS 138 ++ + AMA +AL+ Y+F GN A NF +MIP+R L ++ Sbjct: 104 AALFLIVLFGAMAAWALTEYRFFGNR-------ALNFFIAIGIMIPIRLGTVSILQLVVA 156 Query: 139 LGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLI 198 L L NT T ++L + A + L F++Q+P E+ +AAR +G E ++F+R++LPL+ Sbjct: 157 LDLINTRTALVLVYTAQGLPLAVMILSEFMRQIPGELKDAARCDGVGELSIFFRVILPLL 216 Query: 199 RPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALRGQWTTAWNLVSAGSILAA 258 RPA+A +AV WND ++ L+L G+D +T+GV GQ+ T WN V A +A Sbjct: 217 RPAIATVAVFTMIPAWNDLWFPLILAPGEDTRTVTLGVQQFIGQYATDWNSVLAALSMAV 276 Query: 259 LPSVILFFVMQKQFVAGLTFGASK 282 +P ++L+ +Q + GLT GA K Sbjct: 277 IPVLLLYMAFSRQLIRGLTSGAVK 300 >gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 113 bits (283), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 121/255 (47%), Gaps = 11/255 (4%) Query: 31 PMLTALVTSMRSNDE-------LMAGNYWGWPQDFAMLENYREALTGSPMLHYFWNSCLI 83 P+ A V S +S ++ L G + + + +T P+LH W S Sbjct: 26 PLYVAFVASTQSAEQSALSPLSLAPGGEFMNNYSTVLFKGAAGQVTAPPVLHMLWVSLAT 85 Query: 84 TIPSVVGAIALAAMAGFALSTYQFRGNTILFATFVACNFVPQQILMIPVRDLTLSLGLFN 143 + +G I+++ ++ FA+ ++F G + F +P ++ + P + LG+ N Sbjct: 86 ALIIAIGKISISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVRITPTYQVVSDLGMLN 145 Query: 144 TITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPALA 203 + G+ + IA T T R F +P E+ EAARI+GA ++ PL R + Sbjct: 146 SYAGLSVPLIASAT--ATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVI 203 Query: 204 ALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAAL--RGQWTTAWNLVSAGSILAALPS 261 AL V++F + WN Y W L++ + PI +G+ L G WNLV A ILA LP Sbjct: 204 ALFVIMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLISGGDSAVEWNLVMATMILAMLPP 263 Query: 262 VILFFVMQKQFVAGL 276 ++ VMQK FV GL Sbjct: 264 GLVVVVMQKWFVKGL 278 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 111 bits (278), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 66/252 (26%), Positives = 132/252 (52%), Gaps = 10/252 (3%) Query: 36 LVTSMRSNDELMA--GN-YWGWPQDFAMLENYREALTGSPMLHYFWNSCLITIPSVVGAI 92 ++T+ + ++EL++ GN +W A ++++ L + + N+ ++++ S ++ Sbjct: 46 VITAFKPDNELLSQSGNPFWVIAPTLA---HFKKLLFDTQYPAWLLNTVIVSVVSTFASL 102 Query: 93 ALAAMAGFALSTYQFRGNTILFATFVACNFVPQQILMIPVRDLTLSLGLFNTITGMMLFH 152 A + A +A+ +F+G+ + +P IL IP+ + LGLF+T ++L + Sbjct: 103 AASVFAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTY 162 Query: 153 IAMQTGFCTLFLRNFIKQLPFEMIEAARIEGASEWTVFYRIVLPLIRPALAALAVLVFTF 212 FCT L + + +P+E+ E A I+GA+ W + +I+LPL P L + + FT Sbjct: 163 PTFLIPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTL 222 Query: 213 VWNDYFWALVLTQGDDVAPITVGVAA--LRGQWTTAWNLVSAGSILAALPSVILFFVMQK 270 WN++ +AL +V + VG+ + G W + AG++L +LP +++ + Sbjct: 223 SWNEFIYALTFISSSEVKTVPVGIVTELVEGD-VYHWGALMAGALLGSLPVAVVYSFFVE 281 Query: 271 QFVAGLTFGASK 282 +V+G+T GA K Sbjct: 282 YYVSGMT-GAVK 292 >gi|300309783|ref|YP_003773875.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 271 Score = 107 bits (268), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 70/222 (31%), Positives = 120/222 (54%), Gaps = 1/222 (0%) Query: 61 LENYREALTGSPMLHYFWNSCLITIPSVVGAIALAAMAGFALSTYQFRGNTILFATFVAC 120 LE +RE + S L Y NS ++++ S + ++ LA A ++++ + L ++ Sbjct: 51 LETFREVFSRSHYLGYVQNSLIVSLGSTLLSLLLAVPAAYSMAFFPTGRTQKLLLWMLST 110 Query: 121 NFVPQQILMIPVRDLTLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEMIEAAR 180 +P ++IP+ + + GL +T+TG+ + + + + +P E++EAAR Sbjct: 111 KMMPAVGVLIPIYLMAKNTGLLDTVTGLTIIYTLINLPIAVWMAFTYFNDVPKEILEAAR 170 Query: 181 IEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVGVAALR 240 I+GA+ W ++LP P LA+ A+L+ WN+ FW+L LT + AP+TV +A+ Sbjct: 171 IDGANAWQEMIYLLLPTAMPGLASTALLLVILSWNEAFWSLNLTS-VNAAPLTVFIASYS 229 Query: 241 GQWTTAWNLVSAGSILAALPSVILFFVMQKQFVAGLTFGASK 282 W +SA S+LA P + L ++ QKQ V GLTFGA K Sbjct: 230 NPEGLFWAKLSAASLLAIAPIMALGWLAQKQLVRGLTFGAVK 271 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 0.330 0.140 0.449 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: 796,925 Number of extensions: 28111 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 161 Number of HSP's successfully gapped: 10 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 (21.9 bits) S2: 130 (54.7 bits)