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= 0012.0005.p (566 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313815|ref|YP_003777907.1| Fe3+ ABC transporter permease [... 1100 0.0 gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease ... 62 1e-10 gi|300310411|ref|YP_003774503.1| spermidine/putrescine ABC trans... 58 2e-09 >gi|300313815|ref|YP_003777907.1| Fe3+ ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 603 Score = 1100 bits (2846), Expect = 0.0, Method: Compositional matrix adjust. Identities = 560/566 (98%), Positives = 563/566 (99%) Query: 1 VPLLLIFYQSFLSAPFFAPVKTLTFDSYRFIFDDPDFRQAFVNGLTLATGLALIAVPLGG 60 VPLLLIFYQSFLSAPFFAPVK LTFDSYRFIFDDPDFRQAFVNGLTLATGLALIAVPLGG Sbjct: 38 VPLLLIFYQSFLSAPFFAPVKELTFDSYRFIFDDPDFRQAFVNGLTLATGLALIAVPLGG 97 Query: 61 MLAFLMVRTDLPGRSFIAPALMVPIFVSPMVIGFGYVVSMGPVGFYTVWVKNLLSVFGFE 120 MLAFLMVRTDLPGRSFIAPALMVPIFVSPMVIGFGYVVSMGPVGFYTVWVKNLLSVFGFE Sbjct: 98 MLAFLMVRTDLPGRSFIAPALMVPIFVSPMVIGFGYVVSMGPVGFYTVWVKNLLSVFGFE 157 Query: 121 GDPWNIYSFTSIVIIAGLTHVPHVYLYASAALRSLGSDVEEAARVAGASPLQVALNVSLP 180 GDPWNIYSFTSIVIIAGLTHVPHVYLYASAALRSLGSDVEEAARVAGASPLQVALNVSLP Sbjct: 158 GDPWNIYSFTSIVIIAGLTHVPHVYLYASAALRSLGSDVEEAARVAGASPLQVALNVSLP 217 Query: 181 MITPALAYSGVLVFFLGFEVFGLVLVLGDPEGHLVLPTYLYKLTNKLGTPSYHLMAAVAV 240 MI PALAYSGVLVFFLGFEVFGLVLVLGDPEGHLVLPTYLYKLTNKLGTPSYHLMAAVAV Sbjct: 218 MIMPALAYSGVLVFFLGFEVFGLVLVLGDPEGHLVLPTYLYKLTNKLGTPSYHLMAAVAV 277 Query: 241 CLVAVTMPLVMLQRWLLRSANKFVAIKGKGARQKALPLGKWRWVAFTLIAGWLLFTVIIP 300 CLVAVTMPLVMLQRWLLRSANK+VAIKGKGARQKALPLGKWRWVAF LIAGWLLFTVIIP Sbjct: 278 CLVAVTMPLVMLQRWLLRSANKYVAIKGKGARQKALPLGKWRWVAFVLIAGWLLFTVIIP 337 Query: 301 LSGIGLRTFVSHWGDGVNLLDVLTFENLLNVWDQPSLVRGIINTVLIGVIGGALAVACYT 360 LSGIGLRTFVSHWGDGV+LL+VLTFENLLNVWDQPSLVRGIINTVLIGVIGGALAVACYT Sbjct: 338 LSGIGLRTFVSHWGDGVSLLEVLTFENLLNVWDQPSLVRGIINTVLIGVIGGALAVACYT 397 Query: 361 AIALAMHRKQDGVTRFLDYSVLVPRAVPGLLAGLSFLWVFLFVPSLLDSALKGIDNPIAL 420 AIALAMHRKQDGVTRFLDYSVLVPRAVPGLLAGLSFLWVFLFVPSLLDSALKGIDNPIAL Sbjct: 398 AIALAMHRKQDGVTRFLDYSVLVPRAVPGLLAGLSFLWVFLFVPSLLDSALKGIDNPIAL 457 Query: 421 WLVDSFIPALRGLRSTIFSVWLAYSVVWMAYGLRLINTALLQVGPELEEAARAVGASRSR 480 WLVDSFIPALRGLRSTIFSVWLAYSVVWMAYGLRLINTALLQVGPELEEAARAVGASRSR Sbjct: 458 WLVDSFIPALRGLRSTIFSVWLAYSVVWMAYGLRLINTALLQVGPELEEAARAVGASRSR 517 Query: 481 VTRDVTLPLVRYGLVGAWLMVFLIFEREYSTGVYLLSPGTEVIGSMIVSMWAAGAVELVA 540 VTRDVTLPLVRYGLVGAWLMVFLIFEREYSTGVYLLSPGTEVIGSMIVSMWAAGAVELVA Sbjct: 518 VTRDVTLPLVRYGLVGAWLMVFLIFEREYSTGVYLLSPGTEVIGSMIVSMWAAGAVELVA 577 Query: 541 ALSFINITLVAVGLGIALRFGVKLHD 566 ALSFINITLVAVGLGIALRFGVKLHD Sbjct: 578 ALSFINITLVAVGLGIALRFGVKLHD 603 >gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 74/263 (28%), Positives = 119/263 (45%), Gaps = 38/263 (14%) Query: 26 DSYRFIFDDPDFRQAFVNGLTLATGLALIAV----PLGGMLAFLMVRTDLPGRSFIAPAL 81 D+YR I DPD+ AF N + I + P+G +LA L L G + Sbjct: 51 DNYRTILFDPDWSAAFWNAMWNNVKFFCIHMALQNPIGLLLATLFSLKGLRGARTYRTLI 110 Query: 82 MVPIFVSPMVIGFGYVVSMGP---VGFYTVWVKNLLSVFGFEG--DPWNIYSFTSIVIIA 136 +P +S ++IGF + + + P VG + LL G PW T+++ ++ Sbjct: 111 FLPTLLSVVIIGFIWQLILSPLWGVG------EKLLGTVGLADWFAPWLGQESTALLTLS 164 Query: 137 GLT-----HVPHVYLYASAALRSLGSDVEEAARVAGASPLQVALNVSLPMITPALAYSGV 191 ++ +P + +YA AL ++ +V EAA GAS +++ + LP+I P L + Sbjct: 165 LISVWQYVGIPMMLIYA--ALLAVPEEVLEAAHAEGASAMRIFWQIKLPLIYPTLGLVTI 222 Query: 192 LVFFLGFEVFGLVL-----VLGDPEGHLVLPTYLYK----LTNKLGTPSYHLMAAVA--- 239 L F F F L+ + G +L TY Y+ ++G+P+ + AAVA Sbjct: 223 LTFVANFNAFDLIYSVKGALAGPNYASDLLGTYFYRTFFGYQAQIGSPT--MGAAVATLM 280 Query: 240 --VCLVAVTMPLVMLQRWLLRSA 260 V L V V++QR L R A Sbjct: 281 FLVILGGVGAYFVLVQRRLTRYA 303 >gi|300310411|ref|YP_003774503.1| spermidine/putrescine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 277 Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 63/265 (23%), Positives = 113/265 (42%), Gaps = 26/265 (9%) Query: 2 PLLLIFYQSFLSAPFFA-PVKTLTFDSYRFIFDDPDFRQAFVNGLTLATGLALIAVPLGG 60 P+L++ SF + F P+K+ + Y +F D+ +A N +A +IA LG Sbjct: 36 PILVMIPLSFSDSSFLMYPIKSFSLRWYENLFSSDDWVRAAQNSFIVAPAATVIATVLGT 95 Query: 61 MLAFLMVRTDLPGRSFIAPALMVPIFVSPMVIGFGYVVSMGPVGFYTVWVKNLLSVFGFE 120 + A + + D G+ +++ I +SPM++ V + F + + + Sbjct: 96 LAAVGLNKADFRGK-----GILMAILISPMIVPVVVVGVGVYLFFARIGLSD-------- 142 Query: 121 GDPWNIYSFTSIVIIAGLTHVPHVYLYASAALRSLGSDVEEAARVAGASPLQVALNVSLP 180 S+ +++ P V A L+ ++ A+ GASPL+ V+LP Sbjct: 143 -------SYLGLILAHAALGAPFVVTTVLATLQGFNHNLVRASLSLGASPLRTFFRVTLP 195 Query: 181 MITPALAYSGVLVFFLGFEVFGLVLVLGDPEGHLVLPTYLYKLTNKLGTPSYHLMAAVAV 240 +I P L + F F+ L L + PE LP ++ +P+ +AA+A Sbjct: 196 VIAPGLISGALFAFATSFDEVVLTLFVAGPE-QATLPRQMFAGIKDNISPT---IAALAT 251 Query: 241 CLVAVTMPLVMLQRWLLRSANKFVA 265 L+ + L++ W LR NK A Sbjct: 252 ILIIFSTCLLLALEW-LRGRNKAAA 275 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 0.442 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: 1,732,545 Number of extensions: 72067 Number of successful extensions: 421 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 403 Number of HSP's successfully gapped: 15 Length of query: 566 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 476 Effective length of database: 1,193,720 Effective search space: 568210720 Effective search space used: 568210720 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: 133 (55.8 bits)