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= 0002.0128.p (491 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... 1016 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 144 2e-35 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 132 7e-32 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 67 3e-12 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 62 1e-10 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 1016 bits (2627), Expect = 0.0, Method: Compositional matrix adjust. Identities = 491/491 (100%), Positives = 491/491 (100%) Query: 1 MTAVAAHAGKANDTLVYASDSEVENISQYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQ 60 MTAVAAHAGKANDTLVYASDSEVENISQYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQ Sbjct: 22 MTAVAAHAGKANDTLVYASDSEVENISQYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQ 81 Query: 61 LATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSV 120 LATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSV Sbjct: 82 LATAWKWESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSV 141 Query: 121 DKLADYKVRINLKGPFPAALEYLAGPLPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTP 180 DKLADYKVRINLKGPFPAALEYLAGPLPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTP Sbjct: 142 DKLADYKVRINLKGPFPAALEYLAGPLPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTP 201 Query: 181 GQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSL 240 GQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSL Sbjct: 202 GQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSL 261 Query: 241 KTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGS 300 KTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGS Sbjct: 262 KTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGS 321 Query: 301 QPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAIIG 360 QPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAIIG Sbjct: 322 QPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAIIG 381 Query: 361 DLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYFKGGADDITK 420 DLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYFKGGADDITK Sbjct: 382 DLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYFKGGADDITK 441 Query: 421 DPQLQQYLQTADTSIDPAVRKANYSKAQELISKQAYVAPMFSYSTYYAYNAQLNFQGYPD 480 DPQLQQYLQTADTSIDPAVRKANYSKAQELISKQAYVAPMFSYSTYYAYNAQLNFQGYPD Sbjct: 442 DPQLQQYLQTADTSIDPAVRKANYSKAQELISKQAYVAPMFSYSTYYAYNAQLNFQGYPD 501 Query: 481 ELPRFYEASWK 491 ELPRFYEASWK Sbjct: 502 ELPRFYEASWK 512 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 144 bits (363), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 131/469 (27%), Positives = 212/469 (45%), Gaps = 38/469 (8%) Query: 28 QYHNNLREGVILAHLIWDTLIYRDPKTNEYKPQLATAWKWESPTALVLDLRQGVQFQNGD 87 Q +N+ + + H WD L+ D N+ P LA +WK P LR V++Q+G Sbjct: 45 QLNNHAGDRSVDLHF-WDLLVQND--YNKLVPGLAVSWKNIDPKTWEFKLRPNVKWQDGK 101 Query: 88 KFSADDVVFTFNYAVS-PESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGP 146 F+ADDV+F++ A + P S A ++SV + I P P LA Sbjct: 102 PFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLNLAS- 160 Query: 147 LPIYPAAYFKKVGLEGFSK--APIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIG 204 + I +K E ++ A IGTGPYK S TPG V + +N Y+ G+P Sbjct: 161 VHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYW----NGKPLWE 216 Query: 205 NIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGETMRIGFI----- 259 + + I + R A L++G +D I +V LK +P + V +R+ I Sbjct: 217 KVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFH 276 Query: 260 ------TLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQFG 313 D G +P DVRVR+A++ AINRK D +++G + FG Sbjct: 277 QGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWMPADTFG 336 Query: 314 CDSNAAIK-YDYNPAKAKELLAAAGYPNGFDTDIYAYRER-----EIAEAIIGDLRKVGI 367 N IK ++ A+AK+LLA AG+P+GF I+ +R E +A+ ++GI Sbjct: 337 Y--NPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGI 394 Query: 368 RARLHYMKFAALQTEYRSGKTPMSFYSWGSFSMNDTSAFAGVYF-----KG-GADDIT-- 419 + ++ + +AA + + +S +WG+ + + A V KG GA + Sbjct: 395 KTQVEVLPWAAYSSRANKNEFAVSVLAWGNGTGEASYALVNVLGSVDPKKGIGASNWNHY 454 Query: 420 KDPQLQQYLQTADTSIDPAVRKANYSKAQELISKQAYVAPMFSYSTYYA 468 P + + L + D A R+A A + +S++ V P++ Y +A Sbjct: 455 SSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQNIWA 503 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 132 bits (331), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 95/308 (30%), Positives = 159/308 (51%), Gaps = 19/308 (6%) Query: 75 LDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKG 134 + L+QGV+FQ+G F AD V F+ +P++K + I + L DY V++ LK Sbjct: 98 IRLKQGVKFQDGTVFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKE 157 Query: 135 PFPAALEYLAGP--LPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGY 192 PF A + LA P + I P A K+ G + + P+GTGP+K V + K GY Sbjct: 158 PFSAFINVLAHPSAVMISPTA-LKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGY 216 Query: 193 FKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGE 252 +K G P + I + + D R+A + TG + + +P +QAD LK+ L V + Sbjct: 217 WK---PGYPKVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAP 273 Query: 253 TMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQF 312 ++ +++++T PF + +VR+A+N+AIN++ G + P+ + Sbjct: 274 SIIQRYMSMNTK-----QKPFDNPKVREAINYAINKQALVKVAFNGYAVPMDGVVPQ--- 325 Query: 313 GCD-SNAAIKYDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAII----GDLRKVGI 367 G D + + Y+ KAK LLA AGYPNGF+T++++ A I+ L +VGI Sbjct: 326 GVDYAYKTGPWPYDVKKAKALLAEAGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGI 385 Query: 368 RARLHYMK 375 +A++ ++ Sbjct: 386 KAKIQALE 393 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 67.4 bits (163), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 98/433 (22%), Positives = 176/433 (40%), Gaps = 91/433 (21%) Query: 6 AHAGKANDTLVYASDSEVENISQYHNNLREGVILAHL-IWDTLIYRDPKTNEYKPQLATA 64 AHAGK D L E+ + + R G + A + + +TL+ D + +P +A+A Sbjct: 48 AHAGK--DMLTVVGPWELTGL----DPTRSGYMFARMEVLETLLEVD-DAGQLQPSVASA 100 Query: 65 W-------KWESPTALVLDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWI 117 W +W LR G+++ +G A++P S Q Sbjct: 101 WSVSADGLQWR------FVLRSGLRYHDGS-------------ALTPASILACLQRAQAR 141 Query: 118 KSVDKLADYK-VRIN-------LKGPFPAALEYLAGPLPIYPAAYFKKV------GLEGF 163 V +LAD +R+ L+ PF GPLP Y ++ +G Sbjct: 142 PGVLRLADIAALRVEGQTLVVVLRRPF--------GPLPYLLTHYTTQILAPASFDAQGN 193 Query: 164 SKAPIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNI----KFVVIPDPETRAA 219 A IG+GP+++ S+ Q V+ +G + +++ + ETR Sbjct: 194 VVAIIGSGPFRIRSIALPQQFE-VERVAGSVSGSGAGSDVGKVVQRARYISVSRAETRTL 252 Query: 220 QLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFKDVRVR 279 + +G D + + P +L+ +P+ ++ S R + L+ A + DVRVR Sbjct: 253 LVQSGQADLAFSLDPPSIRALQDSPRASLLSAMLPRTTLLKLN-----AGHPLLADVRVR 307 Query: 280 QAVNHAINRKGYADNLMR----GGSQPVYTACFRTQFGCDSNAAIK-YDYNPAKAKELLA 334 +A++ I R+G A L+R G +Q F +AA+ N +A+ LL Sbjct: 308 RAISLCIEREGIARALLRDPDLGATQ-----LFPPSLARWHDAALAPLRTNLQQARSLLD 362 Query: 335 AAGYPNGFD-----------TDIYAYRERE----IAEAIIGDLRKVGIRARLHYMKFAAL 379 AG+ G D ++ + +R IA A+ ++R++G+ R+ + + Sbjct: 363 QAGWRPGSDGVRRRDGQRMALNLTTFVDRPELPLIATALQEEMRQIGMAVRVVIGNSSDI 422 Query: 380 QTEYRSGKTPMSF 392 +RSG+ M+ Sbjct: 423 PAGHRSGQLQMAL 435 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/213 (27%), Positives = 90/213 (42%), Gaps = 20/213 (9%) Query: 41 HLIWDTLIYRDPKTNEYKPQLATAWKWESPTALV--LDLRQGVQFQNGDKFSADDVVFTF 98 H+ ++ L D K PQ+ A + + A+ + LR+GV F +G + DVV++ Sbjct: 96 HMFYNGLTKLDGKLG---PQMVLAEEMLTNDAVTWTVKLRKGVNFHDGKPLTPADVVYSI 152 Query: 99 NYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKGPFPAALEYLAGPLPIYPA-AYFKK 157 P + + + D +SV +V+I L LP+ A A F Sbjct: 153 MRHKDPATASKVKVVADQFESVKATGPNEVQIKLTSA--------NADLPVILATAQFLI 204 Query: 158 V--GLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGYFKDSPQGQPTIGNIKFVVIPDPE 215 + G FS P GTG +K+ TPG V+N Y+K G P + ++ IPD Sbjct: 205 IRDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWK---PGLPYLDEVELFGIPDEA 260 Query: 216 TRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAV 248 R L++G + WI V +K P V Sbjct: 261 ARVNALLSGDVHWINDVNSRSTGRVKNTPGYTV 293 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: 1,647,270 Number of extensions: 71140 Number of successful extensions: 191 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 5 Length of query: 491 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 402 Effective length of database: 1,198,455 Effective search space: 481778910 Effective search space used: 481778910 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)