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= 0001.3141.p (512 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 980 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 148 1e-36 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 129 7e-31 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 69 7e-13 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 67 4e-12 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 980 bits (2533), Expect = 0.0, Method: Compositional matrix adjust. Identities = 486/512 (94%), Positives = 498/512 (97%) Query: 1 MNAIRKSIMGWSRCAVLVGGALTALAAHANKANDTLVYASDSEVENISQYHNNLREGVIL 60 MNA+ KS++GWSRCAVL GA+TA+AAHA KANDTLVYASDSEVENISQYHNNLREGVIL Sbjct: 1 MNALHKSLLGWSRCAVLAAGAMTAVAAHAGKANDTLVYASDSEVENISQYHNNLREGVIL 60 Query: 61 AHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFN 120 AHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFN Sbjct: 61 AHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFN 120 Query: 121 YAVSPESKAVTRQNIDWIKSVDKLGEYQVRINLKGPFPAALEYLTGPLPIYPAAYFKKVG 180 YAVSPESKAVTRQN DWIKSVDKL +Y+VRINLKGPFPAALEYL GPLPIYPAAYFKKVG Sbjct: 121 YAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGPLPIYPAAYFKKVG 180 Query: 181 LEGFSKAPIGTGPYKVTSVTPGQGVTLVKNTNYFKDSPQGQPSIGNIKFVVIPDPETRAA 240 LEGFSKAPIGTGPYKVTSVTPGQGVTLVKN YFKDSPQGQP+IGNIKFVVIPDPETRAA Sbjct: 181 LEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPETRAA 240 Query: 241 QLMTGAIDWIWRVPPDQADSLKTNPKLTVQSGETMRVGFITLDVTGSSAPNSPFKDVRVR 300 QLMTGAIDWIWRVPPDQADSLKTNPKL VQSGETMR+GFITLD TG+SAPNSPFKDVRVR Sbjct: 241 QLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFKDVRVR 300 Query: 301 QAVNYAINRKGYADNLMRGGSQPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYP 360 QAVN+AINRKGYADNLMRGGSQPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYP Sbjct: 301 QAVNHAINRKGYADNLMRGGSQPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYP 360 Query: 361 NGFDTDIYAYREREIAEAIIGDLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYSWGSFS 420 NGFDTDIYAYREREIAEAIIGDLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYSWGSFS Sbjct: 361 NGFDTDIYAYREREIAEAIIGDLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYSWGSFS 420 Query: 421 MNDTSAFAGVYFKGSADDITKDPQLQQYLQTADTSIDPAVRKANYSKALELISKQAYIAP 480 MNDTSAFAGVYFKG ADDITKDPQLQQYLQTADTSIDPAVRKANYSKA ELISKQAY+AP Sbjct: 421 MNDTSAFAGVYFKGGADDITKDPQLQQYLQTADTSIDPAVRKANYSKAQELISKQAYVAP 480 Query: 481 MFSYSTYYAYNAQLKFQGYPDELPRFYEASWK 512 MFSYSTYYAYNAQL FQGYPDELPRFYEASWK Sbjct: 481 MFSYSTYYAYNAQLNFQGYPDELPRFYEASWK 512 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 148 bits (373), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 131/477 (27%), Positives = 216/477 (45%), Gaps = 42/477 (8%) Query: 49 QYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGD 108 Q +N+ + + H WD L+ D N+ P LA +WK P LR V++Q+G Sbjct: 45 QLNNHAGDRSVDLHF-WDLLVQND--YNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGK 101 Query: 109 KFSADDVVFTFNYAVS-PESKAVTRQNIDWIKSVDKLGEYQVRINLKGPFPAALEYLTGP 167 F+ADDV+F++ A + P S A + ++SV + I P P L Sbjct: 102 PFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNP-DLPLNLAS 160 Query: 168 LPIYPAAYFKKVGLEGFSK--APIGTGPYKVTSVTPGQGVTLVKNTNYFKDSPQGQPSIG 225 + I +K E ++ A IGTGPYK S TPG V + +N +Y+ G+P Sbjct: 161 VHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYW----NGKPLWE 216 Query: 226 NIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLTVQSGETMRVGFI----- 280 + + I + R A L++G +D I +V LK +P + V +RV I Sbjct: 217 KVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFH 276 Query: 281 ------TLDVTGSSAPNSPFKDVRVRQAVNYAINRKGYADNLMRGGSQPVYTACFRTQFG 334 D G +P DVRVR+A++ AINRK D +++G + FG Sbjct: 277 QGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWMPADTFG 336 Query: 335 CDSNAAIK-YDYNPAKAKELLAAAGYPNGFDTDIYAYRER-----EIAEAIIGDLRKVGI 388 N IK ++ A+AK+LLA AG+P+GF I+ +R E +A+ ++GI Sbjct: 337 Y--NPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGI 394 Query: 389 RARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYFKGSAD----------D 438 + ++ + +AA + + +S +WG+ + +++A V GS D + Sbjct: 395 KTQVEVLPWAAYSSRANKNEFAVSVLAWGNGT--GEASYALVNVLGSVDPKKGIGASNWN 452 Query: 439 ITKDPQLQQYLQTADTSIDPAVRKANYSKALELISKQAYIAPMFSYSTYYAYNAQLK 495 P + + L + D A R+A A + +S++ + P++ Y +A LK Sbjct: 453 HYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQNIWAAKKGLK 509 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 129 bits (323), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 92/308 (29%), Positives = 156/308 (50%), Gaps = 19/308 (6%) Query: 96 LDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNIDWIKSVDKLGEYQVRINLKG 155 + L+QGV+FQ+G F AD V F+ +P++K + I + L +Y V++ LK Sbjct: 98 IRLKQGVKFQDGTVFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKE 157 Query: 156 PFPAALEYLTGP--LPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNTNY 213 PF A + L P + I P A K+ G + + P+GTGP+K V + K Y Sbjct: 158 PFSAFINVLAHPSAVMISPTA-LKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGY 216 Query: 214 FKDSPQGQPSIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLTVQSGE 273 +K G P + I + + D R+A + TG + + +P +QAD LK+ L V + Sbjct: 217 WK---PGYPKVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAP 273 Query: 274 TMRVGFITLDVTGSSAPNSPFKDVRVRQAVNYAINRKGYADNLMRGGSQPVYTACFRTQF 333 ++ +++++ PF + +VR+A+NYAIN++ G + P+ + Sbjct: 274 SIIQRYMSMNTK-----QKPFDNPKVREAINYAINKQALVKVAFNGYAVPMDGVVPQ--- 325 Query: 334 GCD-SNAAIKYDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAII----GDLRKVGI 388 G D + + Y+ KAK LLA AGYPNGF+T++++ A I+ L +VGI Sbjct: 326 GVDYAYKTGPWPYDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGI 385 Query: 389 RARLHYMK 396 +A++ ++ Sbjct: 386 KAKIQALE 393 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 69.3 bits (168), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 61/213 (28%), Positives = 93/213 (43%), Gaps = 20/213 (9%) Query: 62 HLIWDTLIYRDPKTNEYKPQLATAWKWESPTALV--LDLRQGVQFQNGDKFSADDVVFTF 119 H+ ++ L D K PQ+ A + + A+ + LR+GV F +G + DVV++ Sbjct: 96 HMFYNGLTKLDGKLG---PQMVLAEEMLTNDAVTWTVKLRKGVNFHDGKPLTPADVVYSI 152 Query: 120 NYAVSPESKAVTRQNIDWIKSVDKLGEYQVRINLKGPFPAALEYLTGPLPIYPA-AYFKK 178 P + + + D +SV G +V+I L LP+ A A F Sbjct: 153 MRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSA--------NADLPVILATAQFLI 204 Query: 179 V--GLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNTNYFKDSPQGQPSIGNIKFVVIPDPE 236 + G FS P GTG +K+ TPG V+N NY+K G P + ++ IPD Sbjct: 205 IRDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWK---PGLPYLDEVELFGIPDEA 260 Query: 237 TRAAQLMTGAIDWIWRVPPDQADSLKTNPKLTV 269 R L++G + WI V +K P TV Sbjct: 261 ARVNALLSGDVHWINDVNSRSTGRVKNTPGYTV 293 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 66.6 bits (161), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 93/425 (21%), Positives = 177/425 (41%), Gaps = 75/425 (17%) Query: 27 AHANKANDTLVYASDSEVENISQYHNNLREGVILAHL-IWDTLIYRDPKTNEYKPQLATA 85 AHA K D L E+ + + R G + A + + +TL+ D + +P +A+A Sbjct: 48 AHAGK--DMLTVVGPWELTGL----DPTRSGYMFARMEVLETLLEVD-DAGQLQPSVASA 100 Query: 86 W-------KWESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNIDWI 138 W +W LR G+++ +G + ++ A +++ + D I Sbjct: 101 WSVSADGLQWR------FVLRSGLRYHDGSALTPASILACLQRA---QARPGVLRLAD-I 150 Query: 139 KSVDKLGEYQVRINLKGPFPAALEYLTGPLPIYPAAYFKKV------GLEGFSKAPIGTG 192 ++ G+ V + L+ PF GPLP Y ++ +G A IG+G Sbjct: 151 AALRVEGQTLV-VVLRRPF--------GPLPYLLTHYTTQILAPASFDAQGNVVAIIGSG 201 Query: 193 PYKVTSVTPGQGVTLVKNTNYFKDSPQGQPSIGNI----KFVVIPDPETRAAQLMTGAID 248 P+++ S+ Q V+ +G + +++ + ETR + +G D Sbjct: 202 PFRIRSIALPQQFE-VERVAGSVSGSGAGSDVGKVVQRARYISVSRAETRTLLVQSGQAD 260 Query: 249 WIWRVPPDQADSLKTNPKLTVQSGETMRVGFITLDVTGSSAPNSPFKDVRVRQAVNYAIN 308 + + P +L+ +P+ ++ S R + L+ A + DVRVR+A++ I Sbjct: 261 LAFSLDPPSIRALQDSPRASLLSAMLPRTTLLKLN-----AGHPLLADVRVRRAISLCIE 315 Query: 309 RKGYADNLMR----GGSQPVYTACFRTQFGCDSNAAIK-YDYNPAKAKELLAAAGYPNGF 363 R+G A L+R G +Q F +AA+ N +A+ LL AG+ G Sbjct: 316 REGIARALLRDPDLGATQ-----LFPPSLARWHDAALAPLRTNLQQARSLLDQAGWRPGS 370 Query: 364 D-----------TDIYAYRERE----IAEAIIGDLRKVGIRARLHYMKFAALQTEYRSGK 408 D ++ + +R IA A+ ++R++G+ R+ + + +RSG+ Sbjct: 371 DGVRRRDGQRMALNLTTFVDRPELPLIATALQEEMRQIGMAVRVVIGNSSDIPAGHRSGQ 430 Query: 409 TPMSF 413 M+ Sbjct: 431 LQMAL 435 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 0.400 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: 1,596,962 Number of extensions: 67353 Number of successful extensions: 185 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 176 Number of HSP's successfully gapped: 5 Length of query: 512 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 423 Effective length of database: 1,198,455 Effective search space: 506946465 Effective search space used: 506946465 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)