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= 0001.2440.p (525 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 358 e-100 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 120 2e-28 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 101 2e-22 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 89 8e-19 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 70 4e-13 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 358 bits (919), Expect = e-100, Method: Compositional matrix adjust. Identities = 193/503 (38%), Positives = 301/503 (59%), Gaps = 12/503 (2%) Query: 27 ELKIGFKAEITSADPHVLNSA-NRNIWAHVYDSLVAQDHQLRPKPSLALSWRMINPTTWE 85 L I F ++S DP + N A +R++ H +D LV D+ + P LA+SW+ I+P TWE Sbjct: 30 NLNIAFADPLSSLDPQLNNHAGDRSVDLHFWDLLVQNDYN-KLVPGLAVSWKNIDPKTWE 88 Query: 86 FKLRPDVKFHDGQTMTAEDVKYSIERAMNLSGP-RTFRSYLREVSAISVSGPLTVQVKTK 144 FKLRP+VK+ DG+ TA+DV +S +RA + G TF YLR V +++ PLT+ +KT Sbjct: 89 FKLRPNVKWQDGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTN 148 Query: 145 HVSPTLPDNLGLIAILPKSLGEHVSEESFANGKSAIGTGPYRFGSWLHGQKLVLNKNSSY 204 +P LP NL + I+ K +GE + E++ +G + IGTGPY+F S+ G ++V+ +N Y Sbjct: 149 IPNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDY 208 Query: 205 WGEKEPWDSVSFQFIPREPARAAALLSGSVDIINDITANMERSLRAFKLVSVTSYMLNYL 264 W K W+ V++++I AR AALLSG VD+I+ ++ + L+ V V Y + Sbjct: 209 WNGKPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRV 268 Query: 265 ALDQ---FRDISPFVRDVTGAPLKKNPMKDLKVRQAMMMAINRDGIIKYLMKDDATAAQQ 321 L Q + SPF+ D G L KNP+ D++VR+AM +AINR +I +++ AT A Q Sbjct: 269 LLIQPSFHQGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQ 328 Query: 322 LVPKGFFGYDPELKLPGYDAAKARELLAQAGYPQGFQLTLHCPNNRYVNDARLCEAVAQQ 381 +P FGY+PE+K +DAA+A++LLA AG+P GF+LT+H PN+RY +AVAQ Sbjct: 329 WMPADTFGYNPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQF 388 Query: 382 WSQVGIRTDVATMPYSVFQTRAFGSGANGEPEFSAFLVGNGAVTGDSLTGLVSIIHSYNA 441 W+++GI+T V +P++ + +RA + EF+ ++ G TG++ LV+++ S + Sbjct: 389 WTRIGIKTQVEVLPWAAYSSRA------NKNEFAVSVLAWGNGTGEASYALVNVLGSVDP 442 Query: 442 ATSLGVSNYGRYSNKEVDALIERAAGTTDDAAREDLQRQASRLALTDVAIIPLQHLNAFW 501 +G SN+ YS+ VD + + D A RE + R A++ +V +IPL H W Sbjct: 443 KKGIGASNWNHYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQNIW 502 Query: 502 AMKQSLVLTPRADGFTMAMDIRQ 524 A K+ L +TP + T AM + + Sbjct: 503 AAKKGLKVTPISSDRTTAMMVTE 525 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 120 bits (302), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 106/360 (29%), Positives = 169/360 (46%), Gaps = 23/360 (6%) Query: 51 IWAH-VYDSLVAQDHQLRP-KPSLALSWRMINPTTWEFKLRPDVKFHDGQTMTAEDVKYS 108 I AH ++D+L+ +D + KP LA +W+ +PT LR V+F +G +A+DV ++ Sbjct: 59 ILAHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFT 118 Query: 109 IERAMNLSGPRTFRSYLREVSAISVSGPLTVQVKTKHVSPTLPDNL-GLIAILPKSLGEH 167 A++ R + ++ V++ K P + L G + I P + + Sbjct: 119 FNYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGPLPIYPAAYFKK 178 Query: 168 VSEESFANGKSAIGTGPYRFGSWLHGQKLVLNKNSSYWGE----KEPWDSVSFQFIPREP 223 V E F+ K+ IGTGPY+ S GQ + L KN Y+ + + ++ F IP Sbjct: 179 VGLEGFS--KAPIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPE 236 Query: 224 ARAAALLSGSVDIINDITANMERSLRAFKLVSVTSYMLNYLALDQFRDISPFVRDVTGAP 283 RAA L++G++D I + + SL+ ++V S + I D TG Sbjct: 237 TRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQS--------GETMRIGFITLDTTGTS 288 Query: 284 LKKNPMKDLKVRQAMMMAINRDGIIKYLMKDDATAAQQLVPKGFFGYDPELKLP-GYDAA 342 +P KD++VRQA+ AINR G LM+ + + FG D + Y+ A Sbjct: 289 APNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQFGCDSNAAIKYDYNPA 348 Query: 343 KARELLAQAGYPQGFQLTLHCPNNRYVNDARLCEAVAQQWSQVGIRTDVATMPYSVFQTR 402 KA+ELLA AGYP GF ++ R + EA+ +VGIR + M ++ QT Sbjct: 349 KAKELLAAAGYPNGFDTDIYAYRER-----EIAEAIIGDLRKVGIRARLHYMKFAALQTE 403 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 101 bits (251), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 113/496 (22%), Positives = 206/496 (41%), Gaps = 42/496 (8%) Query: 6 RKVFAAACIVVGLLGTVAQAAE--------LKIGFKAEITSADPHVLN-SANRNIWAHVY 56 + V AA + V LGT Q A + + + T+ DP+ N + + ++ Y Sbjct: 8 KGVSAAKWLAVAALGTTLQFAAAHAFAAKTVTLAVYSTFTTLDPYDANDTLSLSMAKSFY 67 Query: 57 DSLVAQDHQLRPKPSLALSWRMINPTTWEF--KLRPDVKFHDGQTMTAEDVKYSIERAMN 114 L D ++ P LA + +++ E+ +L+ VKF DG A+ VK +R N Sbjct: 68 QGLFGFDKDMKLIPVLAEGY-LVSKDGLEYTIRLKQGVKFQDGTVFKADAVKAVFDRVTN 126 Query: 115 LSGPRTFRSYLREVSAISVSGPLTVQVKTKHVSPTLPDNLG---LIAILPKSLGEHVSEE 171 + ++ + TV+V K + L + I P +L ++ +++ Sbjct: 127 PDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAFINVLAHPSAVMISPTALKQYGNKD 186 Query: 172 SFANGKSAIGTGPYRFGSWLHGQKLVLNKNSSYWGEKEP-WDSVSFQFIPREPARAAALL 230 +GTGP++F W + + K YW P D + ++ + AR+A + Sbjct: 187 I---AFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYPKVDEIIWKPVVDNNARSAMMQ 243 Query: 231 SGSVDIINDI---TANMERSLRAFKLVSVTSYMLNYLALDQFRDISPFVRDVTGAPLKKN 287 +G + A++ +S +V+ S + Y++++ K+ Sbjct: 244 TGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSMNT----------------KQK 287 Query: 288 PMKDLKVRQAMMMAINRDGIIKYLMKDDATAAQQLVPKGFFGYDPELKLPGYDAAKAREL 347 P + KVR+A+ AIN+ ++K A +VP+G Y + YD KA+ L Sbjct: 288 PFDNPKVREAINYAINKQALVKVAFNGYAVPMDGVVPQGV-DYAYKTGPWPYDVKKAKAL 346 Query: 348 LAQAGYPQGFQLTLHCPNNRYVNDARLCEAVAQQWSQVGIRTDVATMPYSVFQTRAFGSG 407 LA+AGYP GF+ L + ++ + + QQ +QVGI+ + + R Sbjct: 347 LAEAGYPNGFETELWSAYT-HSTAVKIVQFLQQQLAQVGIKAKIQALEAGQRVERVESWQ 405 Query: 408 ANGEPEFSAFLVGNGAVTGDSLTGLVSIIHSYNAATSLGVSNYGRYSNKEVDALIERAAG 467 +G + TG++ L ++ S + L N Y N +VDA I +A Sbjct: 406 DPATAPVRLLYIGWSSSTGEADWALRPLLASESFPPRL--YNTAYYKNDKVDADIAKALT 463 Query: 468 TTDDAAREDLQRQASR 483 T+ +E L + A + Sbjct: 464 LTERKDKEALYKDAQQ 479 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 89.0 bits (219), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 69/254 (27%), Positives = 109/254 (42%), Gaps = 22/254 (8%) Query: 4 VVRKVFAAACIVVGLLGTVAQAAEL-----KIGFKAEITSADPHVLNSANRNIWAH---- 54 ++R + A + + VG G + + + K G K I + ++ + AH Sbjct: 33 MMRTLLAGSLMTVGGTGLLTASGSVMAQTGKRGGKMRIATQTSSTADTLDPAKTAHSTDY 92 Query: 55 -----VYDSLVAQDHQLRPKPSLALSWRMINPTTWEFKLRPDVKFHDGQTMTAEDVKYSI 109 Y+ L D +L P+ LA + TW KLR V FHDG+ +T DV YSI Sbjct: 93 TRVHMFYNGLTKLDGKLGPQMVLAEEMLTNDAVTWTVKLRKGVNFHDGKPLTPADVVYSI 152 Query: 110 ERAMNLSGPRTFRSYLREVSAISVSGPLTVQVKTKHVSPTLPDNLGLIAILPKSLGEHVS 169 R + + + + ++ +GP VQ+K + LP L L + Sbjct: 153 MRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSANADLPVILATAQFL-------II 205 Query: 170 EESFANGKSAIGTGPYRFGSWLHGQKLVLNKNSSYWGEKEPW-DSVSFQFIPREPARAAA 228 + N + GTG ++ + G + + +N +YW P+ D V IP E AR A Sbjct: 206 RDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENYWKPGLPYLDEVELFGIPDEAARVNA 265 Query: 229 LLSGSVDIINDITA 242 LLSG V IND+ + Sbjct: 266 LLSGDVHWINDVNS 279 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 70.5 bits (171), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 87/351 (24%), Positives = 147/351 (41%), Gaps = 40/351 (11%) Query: 20 GTVAQAAE--LKIGFKAEITSADPHVLNSANRNIWAHVYDSLVAQDHQLRPKPSLALSWR 77 G +A A + L + E+T DP S V ++L+ D + +PS+A +W Sbjct: 45 GDIAHAGKDMLTVVGPWELTGLDPT--RSGYMFARMEVLETLLEVDDAGQLQPSVASAWS 102 Query: 78 M-INPTTWEFKLRPDVKFHDGQTMTAEDVKYSIERAMNLSGPRTFRSYLREVSAISVSGP 136 + + W F LR +++HDG +T + ++RA + P R L +++A+ V G Sbjct: 103 VSADGLQWRFVLRSGLRYHDGSALTPASILACLQRAQ--ARPGVLR--LADIAALRVEGQ 158 Query: 137 LTVQVKTKHVSPTLPDNLGLIAILPKSLGEHVSEESF---ANGKSAIGTGPYRFGSWLHG 193 V V + P L +L + ++ SF N + IG+GP+R S Sbjct: 159 TLVVVLRRPFGP-------LPYLLTHYTTQILAPASFDAQGNVVAIIGSGPFRIRSIALP 211 Query: 194 QKLVLNKNSSYWGEKEPWDSVS-------FQFIPREPARAAALLSGSVDIINDITANMER 246 Q+ + + + V + + R R + SG D+ + R Sbjct: 212 QQFEVERVAGSVSGSGAGSDVGKVVQRARYISVSRAETRTLLVQSGQADLAFSLDPPSIR 271 Query: 247 SLRAFKLVSVTSYMLNYLALDQFRDISPFVRDVTGAPLKKNPMKDLKVRQAMMMAINRDG 306 +L+ S+ S ML L + G PL + D++VR+A+ + I R+G Sbjct: 272 ALQDSPRASLLSAMLPRTTLLKLN---------AGHPL----LADVRVRRAISLCIEREG 318 Query: 307 IIKYLMKDDATAAQQLVPKGFFGY-DPELKLPGYDAAKARELLAQAGYPQG 356 I + L++D A QL P + D L + +AR LL QAG+ G Sbjct: 319 IARALLRDPDLGATQLFPPSLARWHDAALAPLRTNLQQARSLLDQAGWRPG 369 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 0.319 0.133 0.391 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: 1,647,119 Number of extensions: 68879 Number of successful extensions: 217 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 6 Length of query: 525 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 435 Effective length of database: 1,193,720 Effective search space: 519268200 Effective search space used: 519268200 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 133 (55.8 bits)