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= 0034.0019.p (539 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... 660 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 129 5e-31 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 99 1e-21 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 90 5e-19 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 660 bits (1704), Expect = 0.0, Method: Compositional matrix adjust. Identities = 311/524 (59%), Positives = 398/524 (75%), Gaps = 1/524 (0%) Query: 17 TAGLMDCLKRGASRRDILKMLLAGGMQATLAGGLATSAASAYAQTPRRGGKLRVGGDTAS 76 T+ ++ + G SRRD+++ LLAG + GL T++ S AQT +RGGK+R+ T+S Sbjct: 17 TSHTLEHAQGGFSRRDMMRTLLAGSLMTVGGTGLLTASGSVMAQTGKRGGKMRIATQTSS 76 Query: 77 VSDTLDPAKQSNKTDYSRGTMLYNGLTSLDASLTPQPALAESFSSKDARVWVFKLRRGVS 136 +DTLDPAK ++ TDY+R M YNGLT LD L PQ LAE + DA W KLR+GV+ Sbjct: 77 TADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAEEMLTNDAVTWTVKLRKGVN 136 Query: 137 FHDGKPLAPADVVFSLMRHKDPATASKAKTLADQIESVKETGPNEVTVTLTAPNADLPVI 196 FHDGKPL PADVV+S+MRHKDPATASK K +ADQ ESVK TGPNEV + LT+ NADLPVI Sbjct: 137 FHDGKPLTPADVVYSIMRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSANADLPVI 196 Query: 197 VGTFHFHIVKAGTTDFSAGIGTGPYKLKEFTPGIRSVVVRNENYWKPGKPYLDEIEFVGI 256 + T F I++ GTT+FS GTG +KLKEFTPG+R++ VRNENYWKPG PYLDE+E GI Sbjct: 197 LATAQFLIIRDGTTNFSTPNGTGAFKLKEFTPGVRTIGVRNENYWKPGLPYLDEVELFGI 256 Query: 257 GDENARVNALLSGGLDLVANLNPRSIERVKGSAGFAVLETPSGAYTDLILRKDVGPGSNP 316 DE ARVNALLSG + + ++N RS RVK + G+ V+ET SG YTDL++R+DV PG++ Sbjct: 257 PDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQYTDLVMRQDVAPGNSM 316 Query: 317 DFVLAMKYLMDREVMRKNIARGHAVLGNDQPIDPTNPFYLAGLPQRQMDLDKAKYHLQKS 376 DF L MKYL+DRE ++ RG+AV+ NDQPIDPTN FY AGLPQR D DKAK+HL K+ Sbjct: 317 DFTLGMKYLLDREQIKMAAFRGYAVIANDQPIDPTNRFYFAGLPQRPYDPDKAKFHLGKA 376 Query: 377 GVTGK-IPLVCSAAAMYSVDIATVLQQTAQRVGLDLELKRMPPEGYWSNQWLSNPVGFGN 435 GV G IP+V S AA SVD+A ++QQ+A ++GL L++KR+P +GYWSNQW+ PVGFGN Sbjct: 377 GVLGSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDVKRVPADGYWSNQWMKVPVGFGN 436 Query: 436 VNPRPSADVLLTQFFQSQAAWNESRFKSEKFDQLLTSARAEIDPGKRKQMYGDMQTIIHE 495 +NPRPSAD+LLTQFF+S A WNES +K+ +FDQL+ +AR E D KRK MY D+QT+IHE Sbjct: 437 INPRPSADILLTQFFKSDAQWNESGWKNPQFDQLVVAARGETDFTKRKAMYADLQTMIHE 496 Query: 496 EAGIGIPMFLALLDGYSSKVKGLSPIPLGGMMGYSFAEHVWLDS 539 + G+GIP+F+ L+G S+KVKG+ P+PLG M Y+ AE+VWLD+ Sbjct: 497 KCGLGIPVFIINLEGISTKVKGIDPVPLGAFMNYTCAEYVWLDA 540 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 129 bits (325), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 125/469 (26%), Positives = 204/469 (43%), Gaps = 57/469 (12%) Query: 80 TLDPAKQSNKTDYSRGTMLYNGLTSLDASLTPQPALAESFSSKDARVWVFKLRRGVSFHD 139 +LDP ++ D S ++ L D + P LA S+ + D + W FKLR V + D Sbjct: 41 SLDPQLNNHAGDRSVDLHFWDLLVQNDYNKL-VPGLAVSWKNIDPKTWEFKLRPNVKWQD 99 Query: 140 GKPLAPADVVFSLMRHKD-PATASKAKTLADQIESVKETGPNEVTVTLTAPNADLPVIVG 198 GKP DV+FS R + P + + +ESV P + + PN DLP+ + Sbjct: 100 GKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLA 159 Query: 199 TFHF---HI-VKAGTTDFSAG---IGTGPYKLKEFTPGIRSVVVRNENYWKPGKPYLDEI 251 + H HI K+ T ++++G IGTGPYK +TPG R V+ RN++YW GKP +++ Sbjct: 160 SVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYWN-GKPLWEKV 218 Query: 252 EFVGIGDENARVNALLSGGLDLVANLNPRSIERVKGSAGFAVLETPSGAYTDLILRKDVG 311 + I + AR ALLSG +D++ ++ + ++K S V P L+++ Sbjct: 219 NYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVY--PYNGLRVLLIQPSFH 276 Query: 312 PGSNPDFVL-------------------AMKYLMDREVMRKNIARGHAVLGNDQPIDPTN 352 G +P F+ AM ++R+ + I +G A N P + Sbjct: 277 QGPSP-FITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWM--PAD 333 Query: 353 PF-YLAGLPQRQMDLDKAKYHLQKSGVTGKIPLVCSAAAMYSVDIATVLQQTAQ---RVG 408 F Y + D +AK L +G L +Q AQ R+G Sbjct: 334 TFGYNPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIG 393 Query: 409 LDLELKRMPPEGYWS----NQWLSNPVGFGN---------VNPRPSADVLLTQFFQSQAA 455 + +++ +P Y S N++ + + +GN VN S D + A Sbjct: 394 IKTQVEVLPWAAYSSRANKNEFAVSVLAWGNGTGEASYALVNVLGSVDPK-----KGIGA 448 Query: 456 WNESRFKSEKFDQLLTSARAEIDPGKRKQMYGDMQTIIHEEAGIGIPMF 504 N + + S D+ L + AE D KR+ + + EE G+ IP++ Sbjct: 449 SNWNHYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGV-IPLY 496 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 98.6 bits (244), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 117/474 (24%), Positives = 193/474 (40%), Gaps = 34/474 (7%) Query: 76 SVSDTLDPAKQSNKTDYSRGTMLYNGLTSLDASLTPQPALAESF-SSKDARVWVFKLRRG 134 S TLDP ++ S Y GL D + P LAE + SKD + +L++G Sbjct: 44 STFTTLDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQG 103 Query: 135 VSFHDGKPLAPADVVFSLM-RHKDPATASKAKTLADQIESVKETGPNEVTVTLTAPNADL 193 V F DG + AD V ++ R +P K L ++I + V V L P + Sbjct: 104 VKFQDGT-VFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAF 162 Query: 194 ------PVIVGTFHFHIVKAGTTDFSAG-IGTGPYKLKEFTPGIRSVVVRNENYWKPGKP 246 P V + + G D + +GTGP+K E+ V + + YWKPG P Sbjct: 163 INVLAHPSAVMISPTALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYP 222 Query: 247 YLDEIEFVGIGDENARVNALLSGGLDLVANLNPRSIERVKGSAGFAVLETPSGAYTDLIL 306 +DEI + + D NAR + +G L + +K + V+ PS + + Sbjct: 223 KVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSM 282 Query: 307 RKDVGPGSNPDFVLAMKYLMDREVMRKNIARGHAVLGNDQPID---PTNPFYLAGLPQRQ 363 P NP A+ Y ++++ + K G+AV P+D P Y Sbjct: 283 NTKQKPFDNPKVREAINYAINKQALVKVAFNGYAV-----PMDGVVPQGVDYAYKTGPWP 337 Query: 364 MDLDKAKYHLQKSGVTGKIPLVCSAAAMYS--VDIATVLQQTAQRVGLDLEL------KR 415 D+ KAK L ++G +A +S V I LQQ +VG+ ++ +R Sbjct: 338 YDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALEAGQR 397 Query: 416 MPPEGYWSNQWLSNPVGFGNVNPRPS---ADVLLTQFFQSQA----AWNESRFKSEKFDQ 468 + W + + PV + S AD L S++ +N + +K++K D Sbjct: 398 VERVESWQDP-ATAPVRLLYIGWSSSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDA 456 Query: 469 LLTSARAEIDPGKRKQMYGDMQTIIHEEAGIGIPMFLALLDGYSSKVKGLSPIP 522 + A + ++ +Y D Q I ++A + LL + +KG+ +P Sbjct: 457 DIAKALTLTERKDKEALYKDAQQEIWKDAPWAFLVTEKLLYARNKNLKGVYVMP 510 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 89.7 bits (221), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 108/441 (24%), Positives = 175/441 (39%), Gaps = 85/441 (19%) Query: 112 QPALAESFSSKDARVWVFKLRRGVSFHDGKPLAPADVVFSLMRHKDPATASKAKTLADQI 171 +P LA ++ + V LR+GV F +G + DVVF+ P + + + D I Sbjct: 79 KPQLATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWI 138 Query: 172 ESVKETGPNEVTVTLTAP-NADLPVIVGTFHF----HIVKAGTTDFS-AGIGTGPYKLKE 225 +SV + +V + L P A L + G + K G FS A IGTGPYK+ Sbjct: 139 KSVDKLADYKVRINLKGPFPAALEYLAGPLPIYPAAYFKKVGLEGFSKAPIGTGPYKVTS 198 Query: 226 FTPGIRSVVVRNENYWK---PGKPYLDEIEFVGIGDENARVNALLSGGLDLVANLNPRSI 282 TPG +V+N Y+K G+P + I+FV I D R L++G +D + + P Sbjct: 199 VTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQA 258 Query: 283 ERVKGS------------AGFAVLET-----PSGAYTDLILRKDVGPGSNPDFVLAMKYL 325 + +K + GF L+T P+ + D+ +R+ A+ + Sbjct: 259 DSLKTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFKDVRVRQ------------AVNHA 306 Query: 326 MDREVMRKNIARG-------------------HAVLGNDQPIDPTNPFYLAGLPQRQMDL 366 ++R+ N+ RG A+ + P AG P D Sbjct: 307 INRKGYADNLMRGGSQPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYPN-GFDT 365 Query: 367 DKAKYHLQK--SGVTGKIPLVCSAAAMYSVDIATVLQQTAQRVGLDLELKRMPPEGY-WS 423 D Y ++ + G + V A ++ + A + QT R G + P Y W Sbjct: 366 DIYAYREREIAEAIIGDLRKVGIRARLHYMKFAAL--QTEYRSG------KTPMSFYSWG 417 Query: 424 NQWLSNPVGFGNVNPRPSADVLLTQFFQSQAAWNESRFKSEKFDQLLTSARAEIDPGKRK 483 + +++ F V + AD + K + Q L +A IDP RK Sbjct: 418 SFSMNDTSAFAGVYFKGGADDIT---------------KDPQLQQYLQTADTSIDPAVRK 462 Query: 484 QMYGDMQTIIHEEAGIGIPMF 504 Y Q +I ++A + PMF Sbjct: 463 ANYSKAQELISKQAYVA-PMF 482 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 0.316 0.134 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: 1,767,416 Number of extensions: 76414 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 186 Number of HSP's successfully gapped: 4 Length of query: 539 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 449 Effective length of database: 1,193,720 Effective search space: 535980280 Effective search space used: 535980280 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 (21.6 bits) S2: 133 (55.8 bits)