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= 0020.0417.p (540 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 1118 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 113 4e-26 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 92 1e-19 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 62 1e-10 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 1118 bits (2892), Expect = 0.0, Method: Compositional matrix adjust. Identities = 539/540 (99%), Positives = 540/540 (100%) Query: 1 MSKQENGRHPQEGSIITSHTLEHAQGGFSRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ 60 MSKQENGRHPQEGSIITSHTLEHAQGGFSRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ Sbjct: 1 MSKQENGRHPQEGSIITSHTLEHAQGGFSRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ 60 Query: 61 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAEEML 120 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAEEML Sbjct: 61 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAEEML 120 Query: 121 TNDAVTWTVKLRKGVSFHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN 180 TNDAVTWTVKLRKGV+FHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN Sbjct: 121 TNDAVTWTVKLRKGVNFHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN 180 Query: 181 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY 240 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY Sbjct: 181 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY 240 Query: 241 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQ 300 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQ Sbjct: 241 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQ 300 Query: 301 YTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRFYFAGLP 360 YTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRFYFAGLP Sbjct: 301 YTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRFYFAGLP 360 Query: 361 QRPYDPDKAKFHLGKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD 420 QRPYDPDKAKFHLGKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD Sbjct: 361 QRPYDPDKAKFHLGKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD 420 Query: 421 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDF 480 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDF Sbjct: 421 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDF 480 Query: 481 TKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA 540 TKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA Sbjct: 481 TKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA 540 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 113 bits (283), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 132/493 (26%), Positives = 209/493 (42%), Gaps = 64/493 (12%) Query: 80 TLDPAKTAHSTDYTRVHMFYNGLTKLD-GKLGPQMVLAEEMLTNDAVTWTVKLRKGVSFH 138 +LDP H+ D + F++ L + D KL P + ++ + + D TW KLR V + Sbjct: 41 SLDPQLNNHAGDRSVDLHFWDLLVQNDYNKLVPGLAVSWKNI--DPKTWEFKLRPNVKWQ 98 Query: 139 DGKPLTPADVVYSIMRHKD-PATASKVKVVADQFESVKATGPNEVQIKLTSANADLPVIL 197 DGKP T DV++S R + P + + ESV A P + IK N DLP+ L Sbjct: 99 DGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNL 158 Query: 198 ATAQFLIIRDG----TTNFSTPN---GTGAFKLKEFTPGVRTIGVRNENYWKPGLPYLDE 250 A+ + G T N+++ GTG +K +TPG R + RN++YW G P ++ Sbjct: 159 ASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYWN-GKPLWEK 217 Query: 251 VELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTV----------------- 293 V I + AAR ALLSGDV I+ V+ ++K +P V Sbjct: 218 VNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQ 277 Query: 294 -----METKSGQYTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPI 348 + +G+ D DV +M + K L+DR +G A AN Sbjct: 278 GPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDR------ILQGAATEANQWM- 330 Query: 349 DPTNRF-YFAGLPQRPYDPDKAKFHLGKAGV---LGSTIPIVASVAATGSVDMAVLMQQS 404 P + F Y + P+D +AK L AG TI + M + Q Sbjct: 331 -PADTFGYNPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVA-QF 388 Query: 405 AAKIGLKLDVKRVPADGYWS----NQWMKVPVGFGNINPRPSADILLTQFFKSD------ 454 +IG+K V+ +P Y S N++ + +GN S L+ D Sbjct: 389 WTRIGIKTQVEVLPWAAYSSRANKNEFAVSVLAWGNGTGEASY-ALVNVLGSVDPKKGIG 447 Query: 455 -AQWNESGWKNPQFDQLVVAARGETDFTKRKAMYADLQTMIHEKCGLGIPVFIINLEGIS 513 + WN + +P D+ + + E D KR+A+ + E+ G+ IP++ + + I Sbjct: 448 ASNWNH--YSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGV-IPLY--HYQNIW 502 Query: 514 TKVKGIDPVPLGA 526 KG+ P+ + Sbjct: 503 AAKKGLKVTPISS 515 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 113/474 (23%), Positives = 196/474 (41%), Gaps = 33/474 (6%) Query: 76 STADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAE-EMLTNDAVTWTVKLRKG 134 ST TLDP + + FY GL D + VLAE +++ D + +T++L++G Sbjct: 44 STFTTLDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQG 103 Query: 135 VSFHDGKPLTPADVVYSIM-RHKDPATASKVKVVADQFESVKATGPNEVQIKLTSANADL 193 V F DG + AD V ++ R +P K + ++ + V++ L + Sbjct: 104 VKFQDGT-VFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAF 162 Query: 194 PVILATAQFLII------RDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWKPGLP 246 +LA ++I + G + + P GTG FK E+ + + YWKPG P Sbjct: 163 INVLAHPSAVMISPTALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYP 222 Query: 247 YLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQYTDLVM 306 +DE+ + D AR + +G+ + + +K+ V+ S + M Sbjct: 223 KVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSM 282 Query: 307 RQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPID---PTNRFYFAGLPQRP 363 P ++ + Y ++++ + AF GYAV P+D P Y P Sbjct: 283 NTKQKPFDNPKVREAINYAINKQALVKVAFNGYAV-----PMDGVVPQGVDYAYKTGPWP 337 Query: 364 YDPDKAKFHLGKAGVL-GSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDV------KR 416 YD KAK L +AG G + ++ + +V + +QQ A++G+K + +R Sbjct: 338 YDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALEAGQR 397 Query: 417 VPADGYWSNQWMKVPVGFGNINPRPS---ADILLTQFFKSDA----QWNESGWKNPQFDQ 469 V W + PV I S AD L S++ +N + +KN + D Sbjct: 398 VERVESWQDP-ATAPVRLLYIGWSSSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDA 456 Query: 470 LVVAARGETDFTKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVP 523 + A T+ ++A+Y D Q I + V L + +KG+ +P Sbjct: 457 DIAKALTLTERKDKEALYKDAQQEIWKDAPWAFLVTEKLLYARNKNLKGVYVMP 510 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/213 (27%), Positives = 90/213 (42%), Gaps = 20/213 (9%) Query: 96 HMFYNGLTKLDGKLG---PQMVLAEEMLTNDAVTWTVKLRKGVSFHDGKPLTPADVVYSI 152 H+ ++ L D K PQ+ A + + A+ + LR+GV F +G + DVV++ Sbjct: 62 HLIWDTLIYRDPKTNEYKPQLATAWKWESPTALV--LDLRQGVQFQNGDKFSADDVVFTF 119 Query: 153 MRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSA--------NADLPVILATAQFLI 204 P + + + D +SV +V+I L LP+ A A F Sbjct: 120 NYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGPLPIYPA-AYFKK 178 Query: 205 IRDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWK---PGLPYLDEVELFGIPDEA 260 + G FS P GTG +K+ TPG V+N Y+K G P + ++ IPD Sbjct: 179 V--GLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPE 236 Query: 261 ARVNALLSGDVHWINDVNSRSTGRVKNTPGYTV 293 R L++G + WI V +K P V Sbjct: 237 TRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAV 269 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 0.317 0.133 0.396 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: 1,795,109 Number of extensions: 78353 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 220 Number of HSP's successfully gapped: 4 Length of query: 540 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 450 Effective length of database: 1,193,720 Effective search space: 537174000 Effective search space used: 537174000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 133 (55.8 bits)