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= 0028.0176.p (523 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 960 0.0 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 122 9e-29 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 103 3e-23 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 84 2e-17 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 72 8e-14 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 960 bits (2481), Expect = 0.0, Method: Compositional matrix adjust. Identities = 464/523 (88%), Positives = 495/523 (94%) Query: 1 MSASAKNKAMSAAKWLALGTLGAALQFGAANAFAAKTATVAVASTFTTMDPYDANDTLSL 60 MS +A +K +SAAKWLA+ LG LQF AA+AFAAKT T+AV STFTT+DPYDANDTLSL Sbjct: 1 MSTTATHKGVSAAKWLAVAALGTTLQFAAAHAFAAKTVTLAVYSTFTTLDPYDANDTLSL 60 Query: 61 SVMKSFYQGLYGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFHDGTVFKADAVKAV 120 S+ KSFYQGL+GFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKF DGTVFKADAVKAV Sbjct: 61 SMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFQDGTVFKADAVKAV 120 Query: 121 FDRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKVVLKEPFSAFINVLAHPSAAMISPAALK 180 FDRVTNPDNKLKRYNLFNRIAKTE+LNDYTVKVVLKEPFSAFINVLAHPSA MISP ALK Sbjct: 121 FDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAFINVLAHPSAVMISPTALK 180 Query: 181 QYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKQGYPKVDEILWKPVVDNNSRSA 240 QYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWK GYPKVDEI+WKPVVDNN+RSA Sbjct: 181 QYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYPKVDEIIWKPVVDNNARSA 240 Query: 241 MLQTGEAQFTYPLPYEQADLLKGKGNLDVIAGPSIIQRYMSMNVKQKPFDNPKVREAINY 300 M+QTGEAQFTYPLPYEQADLLK K NLDV+A PSIIQRYMSMN KQKPFDNPKVREAINY Sbjct: 241 MMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSMNTKQKPFDNPKVREAINY 300 Query: 301 AINKDALAKVAFNGYATPMDGVLPQGVDYAFKTGPWPYDVKKAKALLAEAGYPNGFETEL 360 AINK AL KVAFNGYA PMDGV+PQGVDYA+KTGPWPYDVKKAKALLAEAGYPNGFETEL Sbjct: 301 AINKQALVKVAFNGYAVPMDGVVPQGVDYAYKTGPWPYDVKKAKALLAEAGYPNGFETEL 360 Query: 361 WSAYTHTTAMKVIQFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPIRLFYVGWS 420 WSAYTH+TA+K++QFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAP+RL Y+GWS Sbjct: 361 WSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPVRLLYIGWS 420 Query: 421 SSTGEADWGLRPLLASESFPPRLFNTAYYKSDKVDADIAKALTVSDRKEKEALYKDAQQE 480 SSTGEADW LRPLLASESFPPRL+NTAYYK+DKVDADIAKALT+++RK+KEALYKDAQQE Sbjct: 421 SSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDADIAKALTLTERKDKEALYKDAQQE 480 Query: 481 VWKDAPWAFLVTEKLLYARAKNLKGIYIMPDQAYEFENIEFTK 523 +WKDAPWAFLVTEKLLYAR KNLKG+Y+MPDQA EFENIE K Sbjct: 481 IWKDAPWAFLVTEKLLYARNKNLKGVYVMPDQAIEFENIELVK 523 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 122 bits (305), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 100/310 (32%), Positives = 160/310 (51%), Gaps = 23/310 (7%) Query: 98 IRLKQGVKFHDGTVFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKVVLKE 157 + L+QGV+F +G F AD V F+ +P++K + I + L DY V++ LK Sbjct: 96 LDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKG 155 Query: 158 PFSAFINVLAHPSAAMISPAA-LKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGY 216 PF A + LA P I PAA K+ G + + P+GTGP+K V + K GY Sbjct: 156 PFPAALEYLAGPLP--IYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGY 213 Query: 217 WK---QGYPKVDEILWKPVVDNNSRSAMLQTGEAQFTYPLPYEQADLLKGKGNLDVIAGP 273 +K QG P + I + + D +R+A L TG + + +P +QAD LK L V +G Sbjct: 214 FKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGE 273 Query: 274 SIIQRYMSMNVK-----QKPFDNPKVREAINYAINKDALAKVAFNGYATPMDGVLPQ--- 325 ++ +++++ PF + +VR+A+N+AIN+ A G + P+ + Sbjct: 274 TMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQF 333 Query: 326 GVDY--AFKTGPWPYDVKKAKALLAEAGYPNGFETELWSAYTHTTAMKVIQFLQQQLAQV 383 G D A K + Y+ KAK LLA AGYPNGF+T++++ A +I L +V Sbjct: 334 GCDSNAAIK---YDYNPAKAKELLAAAGYPNGFDTDIYAYREREIAEAII----GDLRKV 386 Query: 384 GIKAKIQALE 393 GI+A++ ++ Sbjct: 387 GIRARLHYMK 396 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 103 bits (257), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 121/498 (24%), Positives = 210/498 (42%), Gaps = 36/498 (7%) Query: 39 TVAVASTFTTMDPYDANDTLSLSVMKSFYQGLYGFDKDMKLIPVLAEGYLVSKDGLEYTI 98 +A A +++DP N SV F+ L D + KL+P LA + + D + Sbjct: 32 NIAFADPLSSLDPQLNNHAGDRSVDLHFWDLLVQNDYN-KLVPGLAVSWK-NIDPKTWEF 89 Query: 99 RLKQGVKFHDGTVFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEVLND---YTVKVVL 155 +L+ VK+ DG F AD V + R + + + R ++ D +K + Sbjct: 90 KLRPNVKWQDGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNI 149 Query: 156 KEPFSAFINVLAHPSAAMISPAALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDG 215 P H + I + + N A +GTGP+KFV + D V + + D Sbjct: 150 PNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAV--IGTGPYKFVSYTPGDRVVMQRNDD 207 Query: 216 YWKQGYPKVDEILWKPVVDNNSRSAMLQTGEAQFTYPLPYEQADLLKGKGNLDVIA---- 271 YW G P +++ ++ + + +R+A L +G+ + LK N+ V Sbjct: 208 YW-NGKPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGL 266 Query: 272 -----------GPS-IIQRYMSMNVKQKPFDNPKVREAINYAINKDALAKVAFNGYATPM 319 GPS I + + P + +VR A++ AIN+ AL G AT Sbjct: 267 RVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEA 326 Query: 320 DGVLPQGV-DYAFKTGPWPYDVKKAKALLAEAGYPNGFETELWSAY-THTTAMKVIQFLQ 377 + +P Y + P+D +AK LLA+AG+P+GF+ + + A + +Q + Sbjct: 327 NQWMPADTFGYNPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVA 386 Query: 378 QQLAQVGIKAKIQALEAGQRVERVESWQDPATAPIRLFYVGWSSSTGEADWGLRPLLASE 437 Q ++GIK +++ L R + + + W + TGEA + L +L S Sbjct: 387 QFWTRIGIKTQVEVLPWAAYSSRANKNE------FAVSVLAWGNGTGEASYALVNVLGSV 440 Query: 438 SFPPRLF---NTAYYKSDKVDADIAKALTVSDRKEKEALYKDAQQEVWKDAPWAFLVTEK 494 P + N +Y S VD +A + D ++EA+ + A + V ++ L + Sbjct: 441 D-PKKGIGASNWNHYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQ 499 Query: 495 LLYARAKNLKGIYIMPDQ 512 ++A K LK I D+ Sbjct: 500 NIWAAKKGLKVTPISSDR 517 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 115/519 (22%), Positives = 209/519 (40%), Gaps = 38/519 (7%) Query: 8 KAMSAAKWLALGTLGAALQFGAANAFAAKTA-----TVAVASTFTTMDPYDANDTLSLSV 62 + + A + +G G G+ A K +ST T+DP + + Sbjct: 35 RTLLAGSLMTVGGTGLLTASGSVMAQTGKRGGKMRIATQTSSTADTLDPAKTAHSTDYTR 94 Query: 63 MKSFYQGLYGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFHDGT-VFKADAVKAVF 121 + FY GL D + VLAE +++ D + +T++L++GV FHDG + AD V ++ Sbjct: 95 VHMFYNGLTKLDGKLGPQMVLAE-EMLTNDAVTWTVKLRKGVNFHDGKPLTPADVVYSIM 153 Query: 122 DRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKVVLKEPFSAFINVLAHPSAAMISPAALKQ 181 R +P K + ++ + V++ L + +LA +I + Sbjct: 154 -RHKDPATASKVKVVADQFESVKATGPNEVQIKLTSANADLPVILATAQFLII------R 206 Query: 182 YGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKQGYPKVDEILWKPVVDNNSRSAM 241 G + + P GTG FK E+ + + YWK G P +DE+ + D +R Sbjct: 207 DGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWKPGLPYLDEVELFGIPDEAARVNA 265 Query: 242 LQTGEAQFTYPLPYEQADLLKGKGNLDVIAGPSIIQRYMSMNVKQKPFDNPKVREAINYA 301 L +G+ + + +K V+ S + M P ++ + Y Sbjct: 266 LLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQYTDLVMRQDVAPGNSMDFTLGMKYL 325 Query: 302 INKDALAKVAFNGYAT-----PMDGVLPQGVDYAFKTGPWPYDVKKAKALLAEAGYPNGF 356 ++++ + AF GYA P+D P Y PYD KAK L +AG G Sbjct: 326 LDREQIKMAAFRGYAVIANDQPID---PTNRFYFAGLPQRPYDPDKAKFHLGKAGVL-GS 381 Query: 357 ETELWSAYTHTTAMKVIQFLQQQLAQVGIKAKIQALEAGQRVERVESWQDP-ATAPIRLF 415 + ++ T ++ + +QQ A++G+K + +RV W + P+ Sbjct: 382 TIPIVASVAATGSVDMAVLMQQSAAKIGLKLDV------KRVPADGYWSNQWMKVPVGFG 435 Query: 416 YVGWSSSTGEADWGLRPLLASESFPPRLFNTAYYKSDKVDADIAKALTVSDRKEKEALYK 475 + S AD L S++ +N + +K+ + D + A +D +++A+Y Sbjct: 436 NINPRPS---ADILLTQFFKSDA----QWNESGWKNPQFDQLVVAARGETDFTKRKAMYA 488 Query: 476 DAQQEVWKDAPWAFLVTEKLLYARAKNLKGIYIMPDQAY 514 D Q + + V L + +KGI +P A+ Sbjct: 489 DLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVPLGAF 527 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 72.4 bits (176), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 74/367 (20%), Positives = 155/367 (42%), Gaps = 38/367 (10%) Query: 46 FTTMDPYDANDTLS-LSVMKSFYQGLYGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGV 104 T +DP + + + V+++ + D +L P +A + VS DGL++ L+ G+ Sbjct: 63 LTGLDPTRSGYMFARMEVLETLLE----VDDAGQLQPSVASAWSVSADGLQWRFVLRSGL 118 Query: 105 KFHDGTVFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKVVLKEPFSAFIN 164 ++HDG+ ++ A R L+ + IA V T+ VVL+ PF Sbjct: 119 RYHDGSALTPASILACLQRAQARPGVLRLAD----IAALRV-EGQTLVVVLRRPFGPLPY 173 Query: 165 VLAHPSAAMISPAALKQYGNKDIAFHPVGTGPFKF--VEWKQTDYVKVAKFDGYWKQGYP 222 +L H + +++PA+ GN +A +G+GPF+ + Q V+ Sbjct: 174 LLTHYTTQILAPASFDAQGNV-VAI--IGSGPFRIRSIALPQQFEVERVAGSVSGSGAGS 230 Query: 223 KVDEILWK----PVVDNNSRSAMLQTGEAQFTYPLPYEQADLLKGKGNLDVIAGPSIIQR 278 V +++ + V +R+ ++Q+G+A + L L+ +++ Sbjct: 231 DVGKVVQRARYISVSRAETRTLLVQSGQADLAFSLDPPSIRALQDSPRASLLSAMLPRTT 290 Query: 279 YMSMNVKQKPFDNPKVREAINYAINKDALAKVAFNGYATPMDGVLPQGV----DYAFKTG 334 + +N + +VR AI+ I ++ +A+ + P + D A Sbjct: 291 LLKLNAGHPLLADVRVRRAISLCIEREGIARALLRDPDLGATQLFPPSLARWHDAAL--A 348 Query: 335 PWPYDVKKAKALLAEAGYPNGFETELWSAYTHTTAMKVIQF------------LQQQLAQ 382 P ++++A++LL +AG+ G + + A+ + F LQ+++ Q Sbjct: 349 PLRTNLQQARSLLDQAGWRPGSDG-VRRRDGQRMALNLTTFVDRPELPLIATALQEEMRQ 407 Query: 383 VGIKAKI 389 +G+ ++ Sbjct: 408 IGMAVRV 414 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: 1,524,708 Number of extensions: 62985 Number of successful extensions: 151 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 142 Number of HSP's successfully gapped: 5 Length of query: 523 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 433 Effective length of database: 1,193,720 Effective search space: 516880760 Effective search space used: 516880760 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)