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= 0001.0932.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... 1056 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 111 2e-25 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 90 5e-19 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 59 7e-10 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 1056 bits (2730), Expect = 0.0, Method: Compositional matrix adjust. Identities = 506/540 (93%), Positives = 522/540 (96%) Query: 1 MSKQENGLPPKEGCIITGDTLEHAHGGFTRRDMMRTLLAGSLMTVGGTGLLTASGNAMAQ 60 MSKQENG P+EG IIT TLEHA GGF+RRDMMRTLLAGSLMTVGGTGLLTASG+ MAQ Sbjct: 1 MSKQENGRHPQEGSIITSHTLEHAQGGFSRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ 60 Query: 61 TGKRGGKLRMATQTSSTSDTLDPAKTGHATDYARVNMFYNGLTKLDGKLAPQMVLAEEMI 120 TGKRGGK+R+ATQTSST+DTLDPAKT H+TDY RV+MFYNGLTKLDGKL PQMVLAEEM+ Sbjct: 61 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAEEML 120 Query: 121 TTDAITWIVKLKKGVVFHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN 180 T DA+TW VKL+KGV FHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN Sbjct: 121 TNDAVTWTVKLRKGVNFHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN 180 Query: 181 EVQIKLTSANADLPVILSTAQFLIVRDGTTNFSTANGTGAFKLKEFTPGVRTIAVRNENY 240 EVQIKLTSANADLPVIL+TAQFLI+RDGTTNFST NGTGAFKLKEFTPGVRTI VRNENY Sbjct: 181 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY 240 Query: 241 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKSTPGYTVMETKSGQ 300 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVK+TPGYTVMETKSGQ Sbjct: 241 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQ 300 Query: 301 YTDLVMRQDVAPGNNMDFTLGMKYLLDREQIKMAAFRGFAVIANDQPIDPTNRFYFAGLP 360 YTDLVMRQDVAPGN+MDFTLGMKYLLDREQIKMAAFRG+AVIANDQPIDPTNRFYFAGLP Sbjct: 301 YTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRFYFAGLP 360 Query: 361 QRPYDPDKAKFHLQKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPPD 420 QRPYDPDKAKFHL KAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVP D Sbjct: 361 QRPYDPDKAKFHLGKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD 420 Query: 421 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDF 480 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDF Sbjct: 421 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDF 480 Query: 481 NKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA 540 KRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA Sbjct: 481 TKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA 540 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 132/493 (26%), Positives = 208/493 (42%), Gaps = 64/493 (12%) Query: 80 TLDPAKTGHATDYARVNMFYNGLTKLD-GKLAPQMVLAEEMITTDAITWIVKLKKGVVFH 138 +LDP HA D + F++ L + D KL P + ++ + I D TW KL+ 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 STAQFLIVRDG----TTNFSTAN---GTGAFKLKEFTPGVRTIAVRNENYWKPGLPYLDE 250 ++ + G T N+++ GTG +K +TPG R + RN++YW G P ++ Sbjct: 159 ASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYWN-GKPLWEK 217 Query: 251 VELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKSTPGYTV----------------- 293 V I + AAR ALLSGDV I+ V+ ++K +P V Sbjct: 218 VNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQ 277 Query: 294 -----METKSGQYTDLVMRQDVAPGNNMDFTLGMKYLLDREQIKMAAFRGFAVIANDQPI 348 + +G+ D DV M + K L+DR +G A AN Sbjct: 278 GPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDR------ILQGAATEANQWM- 330 Query: 349 DPTNRF-YFAGLPQRPYDPDKAKFHLQKAGV---LGSTIPIVASVAATGSVDMAVLMQQS 404 P + F Y + P+D +AK L AG TI + M + Q Sbjct: 331 -PADTFGYNPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVA-QF 388 Query: 405 AAKIGLKLDVKRVPPDGYWS----NQWMKVPVGFGNINPRPSADILLTQFFKSD------ 454 +IG+K V+ +P Y S N++ + +GN S L+ D Sbjct: 389 WTRIGIKTQVEVLPWAAYSSRANKNEFAVSVLAWGNGTGEASY-ALVNVLGSVDPKKGIG 447 Query: 455 -AQWNESGWKNPQFDQLVVAARGETDFNKRKAMYADLQTMIHEKCGLGIPVFIINLEGIS 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 = 89.7 bits (221), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 112/474 (23%), Positives = 192/474 (40%), Gaps = 33/474 (6%) Query: 76 STSDTLDPAKTGHATDYARVNMFYNGLTKLDGKLAPQMVLAE-EMITTDAITWIVKLKKG 134 ST TLDP + FY GL D + VLAE +++ D + + ++LK+G Sbjct: 44 STFTTLDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQG 103 Query: 135 VVFHDGKPLTPADVVYSIM-RHKDPATASKVKVVADQFESVKATGPNEVQIKLTSA-NAD 192 V F DG + AD V ++ R +P K + ++ + V++ L +A Sbjct: 104 VKFQDGT-VFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAF 162 Query: 193 LPVILSTAQFLIVRDGTTNFSTAN------GTGAFKLKEFTPGVRTIAVRNENYWKPGLP 246 + V+ + +I + + GTG FK E+ + + YWKPG P Sbjct: 163 INVLAHPSAVMISPTALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYP 222 Query: 247 YLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKSTPGYTVMETKSGQYTDLVM 306 +DE+ + D AR + +G+ + + +KS V+ S + M Sbjct: 223 KVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSM 282 Query: 307 RQDVAPGNNMDFTLGMKYLLDREQIKMAAFRGFAVIANDQPID---PTNRFYFAGLPQRP 363 P +N + Y ++++ + AF G+AV P+D P Y P Sbjct: 283 NTKQKPFDNPKVREAINYAINKQALVKVAFNGYAV-----PMDGVVPQGVDYAYKTGPWP 337 Query: 364 YDPDKAKFHLQKAGVL-GSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDV------KR 416 YD KAK L +AG G + ++ + +V + +QQ A++G+K + +R Sbjct: 338 YDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALEAGQR 397 Query: 417 VPPDGYWSNQWMKVPVGFGNINPRPS---ADILLTQFFKSDA----QWNESGWKNPQFDQ 469 V W + PV I S AD L S++ +N + +KN + D Sbjct: 398 VERVESWQDP-ATAPVRLLYIGWSSSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDA 456 Query: 470 LVVAARGETDFNKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVP 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 = 59.3 bits (142), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 54/195 (27%), Positives = 84/195 (43%), Gaps = 17/195 (8%) Query: 111 PQMVLAEEMITTDAITWIVKLKKGVVFHDGKPLTPADVVYSIMRHKDPATASKVKVVADQ 170 PQ+ A + + A+ ++ L++GV F +G + DVV++ P + + + D Sbjct: 80 PQLATAWKWESPTAL--VLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDW 137 Query: 171 FESVKATGPNEVQIKLTSA--------NADLPVILSTAQFLIVRDGTTNFSTAN-GTGAF 221 +SV +V+I L LP I A F V G FS A GTG + Sbjct: 138 IKSVDKLADYKVRINLKGPFPAALEYLAGPLP-IYPAAYFKKV--GLEGFSKAPIGTGPY 194 Query: 222 KLKEFTPGVRTIAVRNENYWK---PGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVN 278 K+ TPG V+N Y+K G P + ++ IPD R L++G + WI V Sbjct: 195 KVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVP 254 Query: 279 SRSTGRVKSTPGYTV 293 +K+ P V Sbjct: 255 PDQADSLKTNPKLAV 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 0.318 0.134 0.399 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: 1,782,839 Number of extensions: 76722 Number of successful extensions: 217 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 210 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)