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= 0002.0034.p (276 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease ... 546 e-157 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 114 6e-27 gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 109 3e-25 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 100 9e-23 gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transp... 92 6e-20 >gi|300312389|ref|YP_003776481.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 276 Score = 546 bits (1406), Expect = e-157, Method: Compositional matrix adjust. Identities = 276/276 (100%), Positives = 276/276 (100%) Query: 1 MIAPTSPFADRHRALETVSAWVLALLWLLPLLYALWTAFHPAAFATRFTLDAPLTLQNFV 60 MIAPTSPFADRHRALETVSAWVLALLWLLPLLYALWTAFHPAAFATRFTLDAPLTLQNFV Sbjct: 1 MIAPTSPFADRHRALETVSAWVLALLWLLPLLYALWTAFHPAAFATRFTLDAPLTLQNFV 60 Query: 61 NAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMP 120 NAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMP Sbjct: 61 NAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMP 120 Query: 121 DILIVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAW 180 DILIVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAW Sbjct: 121 DILIVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAW 180 Query: 181 QILMQVYVPLARPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQVFSSTDQGVD 240 QILMQVYVPLARPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQVFSSTDQGVD Sbjct: 181 QILMQVYVPLARPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQVFSSTDQGVD 240 Query: 241 WSIITAATLMTSAPLLLAFLLFQRQFVQSFMRAGIR 276 WSIITAATLMTSAPLLLAFLLFQRQFVQSFMRAGIR Sbjct: 241 WSIITAATLMTSAPLLLAFLLFQRQFVQSFMRAGIR 276 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 114 bits (286), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 136/279 (48%), Gaps = 25/279 (8%) Query: 4 PTSPFADRHRALETVSAWVLALLWLLPLLYALWTAFH-------------PAAFATRFTL 50 P + +RAL S V L+WLLP+L AL T+ P FA Sbjct: 5 PIEKWKPINRALYRASLPVALLIWLLPMLAALVTSIRSNDELMAGNYWGWPQDFAM---- 60 Query: 51 DAPLTLQNFVNAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFM 110 L+N+ A A+P YF N+ L+ + + LA +A +A + + FRG+ V+F Sbjct: 61 -----LENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFA 115 Query: 111 LVLLQLMVMPDILIVENYQTMNLLGLRDTILSIGLPYFA--SAFGIFLLRQTFKTVPREL 168 + V IL++ LGL +TI + L + A + F LR K +P E+ Sbjct: 116 TFVACNFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEM 175 Query: 169 DEAATVEGASAWQILMQVYVPLARPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVG 228 EAA +EGAS W + ++ +PL RP A ++ + WN++ W L++T + P+TVG Sbjct: 176 IEAARIEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVG 235 Query: 229 LQVFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFV 267 + W++++A +++ + P ++ F + Q+QFV Sbjct: 236 VAALRG-QWTTAWNLVSAGSILAALPSVILFFVMQKQFV 273 >gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 109 bits (272), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 60/194 (30%), Positives = 106/194 (54%), Gaps = 1/194 (0%) Query: 81 MILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMPDILIVENYQTMNLLGLRDTI 140 +I ++ ++ L+A+A F F G + F ++ + LM+ ++ I YQ ++ LG+ ++ Sbjct: 88 IIAIGKISISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVRITPTYQVVSDLGMLNSY 147 Query: 141 LSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLARPIYIAFGL 200 + +P ASA FL RQ F TVP EL EAA ++GA + L V PL+R IA + Sbjct: 148 AGLSVPLIASATATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVIALFV 207 Query: 201 VSVSTHWNNFLWPLIVTNSVESRPLTVGLQ-VFSSTDQGVDWSIITAATLMTSAPLLLAF 259 + WN +LWPLI+ P+ +G++ + S D V+W+++ A ++ P L Sbjct: 208 IMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLISGGDSAVEWNLVMATMILAMLPPGLVV 267 Query: 260 LLFQRQFVQSFMRA 273 ++ Q+ FV+ + + Sbjct: 268 VVMQKWFVKGLVDS 281 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 100 bits (250), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 119/244 (48%), Gaps = 8/244 (3%) Query: 37 TAFHP-----AAFATRFTLDAPLTLQNFVNAWQAAPFPRYFLNTFLLVTMILAAQLVLAT 91 TAF P + F + AP TL +F +P + LNT ++ + A L + Sbjct: 48 TAFKPDNELLSQSGNPFWVIAP-TLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASV 106 Query: 92 LAAYAFARFTFRGSNVMFMLVLLQLMVMPDILIVENYQTMNLLGLRDT--ILSIGLPYFA 149 AAYA R F+GS + + + L ++ P IL + + LGL DT L + P F Sbjct: 107 FAAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFL 166 Query: 150 SAFGIFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLARPIYIAFGLVSVSTHWNN 209 F +LL F+++P EL+E A ++GA+ W+IL+++ +PLA P I+ G+ + + WN Sbjct: 167 IPFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNE 226 Query: 210 FLWPLIVTNSVESRPLTVGLQVFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFVQS 269 F++ L +S E + + VG+ W + A L+ S P+ + + F +V Sbjct: 227 FIYALTFISSSEVKTVPVGIVTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSG 286 Query: 270 FMRA 273 A Sbjct: 287 MTGA 290 >gi|300311927|ref|YP_003776019.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 298 Score = 91.7 bits (226), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 55/205 (26%), Positives = 107/205 (52%), Gaps = 22/205 (10%) Query: 56 LQNFVNAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQ 115 L+N Q RY N+ L+ +++++ +L+L+++ A+A + F R ++ +L+ Sbjct: 55 LENLREVAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSA 114 Query: 116 LMVMPDILIVENY--------------QTMNLLG--------LRDTILSIGLPYFASAFG 153 L++ ++ IV Y Q ++L G L +T + LP ASA G Sbjct: 115 LLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATG 174 Query: 154 IFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLARPIYIAFGLVSVSTHWNNFLWP 213 FL Q ++T+P EL EAA ++GA W+ + + +PL++ + A G + + W +++WP Sbjct: 175 TFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWP 234 Query: 214 LIVTNSVESRPLTVGLQVFSSTDQG 238 L++T+ + R +T+ + F + G Sbjct: 235 LVITSHEQMRTITLAMASFLPVESG 259 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 0.139 0.428 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: 638,984 Number of extensions: 20971 Number of successful extensions: 146 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 10 Length of query: 276 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 192 Effective length of database: 1,222,130 Effective search space: 234648960 Effective search space used: 234648960 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)