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= 0004.0110.p (286 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 ... 468 e-133 gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease ... 111 6e-26 gi|300313087|ref|YP_003777179.1| sn-glycerol-3-phosphate ABC tra... 108 6e-25 gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease ... 102 3e-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 = 468 bits (1203), Expect = e-133, Method: Compositional matrix adjust. Identities = 269/286 (94%), Positives = 272/286 (95%), Gaps = 10/286 (3%) Query: 1 MIAPTSPFAERHRALETVSAWVLALLWLLPLLYALWTAFHPAAYATRFVPDAPLTLQNKA 60 MIAPTSPFA+RHRALETVSAWVLALLWLLPLLYALWTAFHPAA+ATRF DAPLTLQN Sbjct: 1 MIAPTSPFADRHRALETVSAWVLALLWLLPLLYALWTAFHPAAFATRFTLDAPLTLQN-- 58 Query: 61 VRLXALQNFANAWHAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFM 120 F NAW AAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFM Sbjct: 59 --------FVNAWQAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFM 110 Query: 121 LVLLQLMVMPDILIVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDE 180 LVLLQLMVMPDILIVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDE Sbjct: 111 LVLLQLMVMPDILIVENYQTMNLLGLRDTILSIGLPYFASAFGIFLLRQTFKTVPRELDE 170 Query: 181 AATVEGASAWQILMQVYVPLAKPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQ 240 AATVEGASAWQILMQVYVPLA+PIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQ Sbjct: 171 AATVEGASAWQILMQVYVPLARPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVGLQ 230 Query: 241 VFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFVQSFMRAGIR 286 VFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFVQSFMRAGIR Sbjct: 231 VFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFVQSFMRAGIR 276 >gi|300309612|ref|YP_003773704.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 111 bits (278), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 80/279 (28%), Positives = 135/279 (48%), Gaps = 15/279 (5%) Query: 4 PTSPFAERHRALETVSAWVLALLWLLPLLYALWTAFHPAAYATRFVPDAPLTLQNK---A 60 P + +RAL S V L+WLLP+L AA T + L N Sbjct: 5 PIEKWKPINRALYRASLPVALLIWLLPML---------AALVTSIRSNDELMAGNYWGWP 55 Query: 61 VRLXALQNFANAWHAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFM 120 L+N+ A A+P YF N+ L+ + + LA +A +A + + FRG+ V+F Sbjct: 56 QDFAMLENYREALTASPMLHYFWNSCLITIPSVIGAISLAAMAGFALSTYQFRGNTVLFA 115 Query: 121 LVLLQLMVMPDILIVENYQTMNLLGLRDTILSIGLPYFA--SAFGIFLLRQTFKTVPREL 178 + V IL++ LGL +TI + L + A + F LR K +P E+ Sbjct: 116 TFVACNFVPQQILMIPVRDLSLSLGLFNTITGMMLFHIAMQTGFCTLFLRNFIKQLPFEM 175 Query: 179 DEAATVEGASAWQILMQVYVPLAKPIYIAFGLVSVSTHWNNFLWPLIVTNSVESRPLTVG 238 EAA +EGAS W + ++ +PL +P A ++ + WN++ W L++T + P+TVG Sbjct: 176 IEAARIEGASEWTVFYRIVLPLIRPALAALAVLVFTFVWNDYFWALVLTQGDDVAPITVG 235 Query: 239 LQVFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFV 277 + 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 = 108 bits (269), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 59/194 (30%), Positives = 106/194 (54%), Gaps = 1/194 (0%) Query: 91 MILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQLMVMPDILIVENYQTMNLLGLRDTI 150 +I ++ ++ L+A+A F F G + F ++ + LM+ ++ I YQ ++ LG+ ++ Sbjct: 88 IIAIGKISISMLSAFAIVYFRFPGRGLFFWMIFVTLMLPVEVRITPTYQVVSDLGMLNSY 147 Query: 151 LSIGLPYFASAFGIFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLAKPIYIAFGL 210 + +P ASA FL RQ F TVP EL EAA ++GA + L V PL++ IA + Sbjct: 148 AGLSVPLIASATATFLFRQFFLTVPDELAEAARIDGAGPLRFLKDVLWPLSRTNVIALFV 207 Query: 211 VSVSTHWNNFLWPLIVTNSVESRPLTVGLQ-VFSSTDQGVDWSIITAATLMTSAPLLLAF 269 + WN +LWPLI+ P+ +G++ + S D V+W+++ A ++ P L Sbjct: 208 IMFIYGWNQYLWPLIIATDTSMYPIGIGIKTLISGGDSAVEWNLVMATMILAMLPPGLVV 267 Query: 270 LLFQRQFVQSFMRA 283 ++ Q+ FV+ + + Sbjct: 268 VVMQKWFVKGLVDS 281 >gi|300312637|ref|YP_003776729.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 117/243 (48%), Gaps = 5/243 (2%) Query: 46 TRFVPDAPLTLQNKA---VRLXALQNFANAWHAAPFPRYFLNTFLLVTMILAAQLVLATL 102 T F PD L Q+ V L +F +P + LNT ++ + A L + Sbjct: 48 TAFKPDNELLSQSGNPFWVIAPTLAHFKKLLFDTQYPAWLLNTVIVSVVSTFASLAASVF 107 Query: 103 AAYAFARFTFRGSNVMFMLVLLQLMVMPDILIVENYQTMNLLGLRDT--ILSIGLPYFAS 160 AAYA R F+GS + + + L ++ P IL + + LGL DT L + P F Sbjct: 108 AAYAIERLRFQGSKQVGLGIFLAYLIPPSILFIPLAAIVFKLGLFDTRWALILTYPTFLI 167 Query: 161 AFGIFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLAKPIYIAFGLVSVSTHWNNF 220 F +LL F+++P EL+E A ++GA+ W+IL+++ +PLA P I+ G+ + + WN F Sbjct: 168 PFCTWLLMGYFRSIPYELEECALIDGATRWEILVKIILPLAVPGLISAGIFAFTLSWNEF 227 Query: 221 LWPLIVTNSVESRPLTVGLQVFSSTDQGVDWSIITAATLMTSAPLLLAFLLFQRQFVQSF 280 ++ L +S E + + VG+ W + A L+ S P+ + + F +V Sbjct: 228 IYALTFISSSEVKTVPVGIVTELVEGDVYHWGALMAGALLGSLPVAVVYSFFVEYYVSGM 287 Query: 281 MRA 283 A Sbjct: 288 TGA 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 = 106/205 (51%), Gaps = 22/205 (10%) Query: 66 LQNFANAWHAAPFPRYFLNTFLLVTMILAAQLVLATLAAYAFARFTFRGSNVMFMLVLLQ 125 L+N RY N+ L+ +++++ +L+L+++ A+A + F R ++ +L+ Sbjct: 55 LENLREVAQRIDLWRYLFNSLLVASLVVSGKLLLSSVTAFAVSYFRPRCRGLILVLLFSA 114 Query: 126 LMVMPDILIVENY--------------QTMNLLG--------LRDTILSIGLPYFASAFG 163 L++ ++ IV Y Q ++L G L +T + LP ASA G Sbjct: 115 LLLPLEVRIVPTYAAASDLLEPLRSLLQALDLSGQQAVPSISLVNTYAGLSLPLVASATG 174 Query: 164 IFLLRQTFKTVPRELDEAATVEGASAWQILMQVYVPLAKPIYIAFGLVSVSTHWNNFLWP 223 FL Q ++T+P EL EAA ++GA W+ + + +PL+K + A G + + W +++WP Sbjct: 175 TFLFLQFYRTIPPELVEAARIDGAGPWRFYVDILLPLSKTNFAALGAIVFISTWKDYMWP 234 Query: 224 LIVTNSVESRPLTVGLQVFSSTDQG 248 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 0.138 0.425 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: 658,510 Number of extensions: 21788 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 149 Number of HSP's successfully gapped: 10 Length of query: 286 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 202 Effective length of database: 1,222,130 Effective search space: 246870260 Effective search space used: 246870260 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)