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= 0034.0166.p (464 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... 895 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 107 2e-24 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 84 2e-17 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 64 3e-11 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 895 bits (2313), Expect = 0.0, Method: Compositional matrix adjust. Identities = 435/458 (94%), Positives = 443/458 (96%) Query: 5 MSKQENGHHPKEGSIITGDALDQAPGGFTRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ 64 MSKQENG HP+EGSIIT L+ A GGF+RRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ Sbjct: 1 MSKQENGRHPQEGSIITSHTLEHAQGGFSRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQ 60 Query: 65 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLAPQMVLAEEML 124 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKL PQMVLAEEML Sbjct: 61 TGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAEEML 120 Query: 125 TTDAITWTVKLRKGVVFHDGKPFTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN 184 T DA+TWTVKLRKGV FHDGKP TPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN Sbjct: 121 TNDAVTWTVKLRKGVNFHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPN 180 Query: 185 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY 244 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY Sbjct: 181 EVQIKLTSANADLPVILATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENY 240 Query: 245 WKTGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNARSTGRVKGTPGYTVMETKSGQ 304 WK GLPYLDEVELFGIPDEAARVNALLSGDVHWINDVN+RSTGRVK TPGYTVMETKSGQ Sbjct: 241 WKPGLPYLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQ 300 Query: 305 YTDLVIRQDQAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVTANDQPIDPTNRFYFAGLP 364 YTDLV+RQD APGNSMDFTLGMKYLLDREQIKMAAFRGYAV ANDQPIDPTNRFYFAGLP Sbjct: 301 YTDLVMRQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRFYFAGLP 360 Query: 365 QRPFDPEKAKFHLEKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD 424 QRP+DP+KAKFHL KAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD Sbjct: 361 QRPYDPDKAKFHLGKAGVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPAD 420 Query: 425 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWN 462 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWN Sbjct: 421 GYWSNQWMKVPVGFGNINPRPSADILLTQFFKSDAQWN 458 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 107 bits (267), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 99/330 (30%), Positives = 146/330 (44%), Gaps = 43/330 (13%) Query: 84 TLDPAKTAHSTDYTRVHMFYNGLTKLD-GKLAPQMVLAEEMLTTDAITWTVKLRKGVVFH 142 +LDP H+ D + F++ L + D KL P + ++ + + D TW KLR V + Sbjct: 41 SLDPQLNNHAGDRSVDLHFWDLLVQNDYNKLVPGLAVSWKNI--DPKTWEFKLRPNVKWQ 98 Query: 143 DGKPFTPADVVYSIMRHKD-PATASKVKVVADQFESVKATGPNEVQIKLTSANADLPVIL 201 DGKPFT DV++S R + P + + ESV A P + IK N DLP+ L Sbjct: 99 DGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNL 158 Query: 202 ATAQFLIIRDG----TTNFSTPN---GTGAFKLKEFTPGVRTIGVRNENYWKTGLPYLDE 254 A+ + G T N+++ GTG +K +TPG R + RN++YW G P ++ Sbjct: 159 ASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYW-NGKPLWEK 217 Query: 255 VELFGIPDEAARVNALLSGDVHWINDVNARSTGRVKGTPGYTV----------------- 297 V I + AAR ALLSGDV I+ V+ ++K +P V Sbjct: 218 VNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQ 277 Query: 298 -----METKSGQYTDLVIRQDQAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVTANDQPI 352 + +G+ D D +M + K L+DR +G A AN Sbjct: 278 GPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDR------ILQGAATEANQWM- 330 Query: 353 DPTNRF-YFAGLPQRPFDPEKAKFHLEKAG 381 P + F Y + PFD +AK L AG Sbjct: 331 -PADTFGYNPEIKNIPFDAAQAKKLLADAG 359 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 86/357 (24%), Positives = 154/357 (43%), Gaps = 19/357 (5%) Query: 80 STADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLAPQMVLAE-EMLTTDAITWTVKLRKG 138 ST TLDP + + FY GL D + VLAE +++ D + +T++L++G Sbjct: 44 STFTTLDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQG 103 Query: 139 VVFHDGKPFTPADVVYSIM-RHKDPATASKVKVVADQFESVKATGPNEVQIKLTSANADL 197 V F DG F AD V ++ R +P K + ++ + V++ L + Sbjct: 104 VKFQDGTVFK-ADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAF 162 Query: 198 PVILATAQFLII------RDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWKTGLP 250 +LA ++I + G + + P GTG FK E+ + + YWK G P Sbjct: 163 INVLAHPSAVMISPTALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYP 222 Query: 251 YLDEVELFGIPDEAARVNALLSGDVHWINDVNARSTGRVKGTPGYTVMETKSGQYTDLVI 310 +DE+ + D AR + +G+ + + +K V+ S + + Sbjct: 223 KVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSM 282 Query: 311 RQDQAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVTANDQPID---PTNRFYFAGLPQRP 367 Q P ++ + Y ++++ + AF GYAV P+D P Y P Sbjct: 283 NTKQKPFDNPKVREAINYAINKQALVKVAFNGYAV-----PMDGVVPQGVDYAYKTGPWP 337 Query: 368 FDPEKAKFHLEKAGVL-GSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPA 423 +D +KAK L +AG G + ++ + +V + +QQ A++G+K ++ + A Sbjct: 338 YDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALEA 394 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 63.9 bits (154), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 59/213 (27%), Positives = 91/213 (42%), Gaps = 20/213 (9%) Query: 100 HMFYNGLTKLDGK---LAPQMVLAEEMLTTDAITWTVKLRKGVVFHDGKPFTPADVVYSI 156 H+ ++ L D K PQ+ A + + A+ + LR+GV F +G F+ DVV++ Sbjct: 62 HLIWDTLIYRDPKTNEYKPQLATAWKWESPTALV--LDLRQGVQFQNGDKFSADDVVFTF 119 Query: 157 MRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSA--------NADLPVILATAQFLI 208 P + + + D +SV +V+I L LP+ A A F Sbjct: 120 NYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGPLPIYPA-AYFKK 178 Query: 209 IRDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWK---TGLPYLDEVELFGIPDEA 264 + G FS P GTG +K+ TPG V+N Y+K G P + ++ IPD Sbjct: 179 V--GLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPE 236 Query: 265 ARVNALLSGDVHWINDVNARSTGRVKGTPGYTV 297 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 0.393 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: 1,545,835 Number of extensions: 67100 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 187 Number of HSP's successfully gapped: 4 Length of query: 464 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 375 Effective length of database: 1,198,455 Effective search space: 449420625 Effective search space used: 449420625 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: 132 (55.5 bits)