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= 0001.1699.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... 1010 0.0 gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip... 131 2e-31 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 108 8e-25 gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter perip... 94 2e-20 gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 74 3e-14 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 1010 bits (2611), Expect = 0.0, Method: Compositional matrix adjust. Identities = 500/523 (95%), Positives = 512/523 (97%) Query: 1 MSITATTKGLSTAKWLAVAALGTTLQFAAAHAFAAKSVTLAVYSTFTTMDPYDANDTLSL 60 MS TAT KG+S AKWLAVAALGTTLQFAAAHAFAAK+VTLAVYSTFTT+DPYDANDTLSL Sbjct: 1 MSTTATHKGVSAAKWLAVAALGTTLQFAAAHAFAAKTVTLAVYSTFTTLDPYDANDTLSL 60 Query: 61 SMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFQDGTDFKADAVKAV 120 SMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFQDGT FKADAVKAV Sbjct: 61 SMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFQDGTVFKADAVKAV 120 Query: 121 FDRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKIVLKEPFSAFINVLAHPSAVMISPAALK 180 FDRVTNPDNKLKRYNLFNRIAKTE+LNDYTVK+VLKEPFSAFINVLAHPSAVMISP ALK Sbjct: 121 FDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAFINVLAHPSAVMISPTALK 180 Query: 181 QYGNKDIAFHPVGTGPFKFVEWKQTDYVKVEKFDGYWKKGYPKVDEIIWKPVVDNNARSA 240 QYGNKDIAFHPVGTGPFKFVEWKQTDYVKV KFDGYWK GYPKVDEIIWKPVVDNNARSA Sbjct: 181 QYGNKDIAFHPVGTGPFKFVEWKQTDYVKVAKFDGYWKPGYPKVDEIIWKPVVDNNARSA 240 Query: 241 MMQTGEAQFTYPLPYEQADLLKSKPNLDVISAPSIIQRYMSMNTKQKPFDNPKVREAINY 300 MMQTGEAQFTYPLPYEQADLLKSK NLDV++APSIIQRYMSMNTKQKPFDNPKVREAINY Sbjct: 241 MMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSMNTKQKPFDNPKVREAINY 300 Query: 301 AINKQALVKVAFNGYATPMDGVVPQGVDYAFKTGPWPYDPKKAKALLAEAGYPNGFETEL 360 AINKQALVKVAFNGYA PMDGVVPQGVDYA+KTGPWPYD KKAKALLAEAGYPNGFETEL Sbjct: 301 AINKQALVKVAFNGYAVPMDGVVPQGVDYAYKTGPWPYDVKKAKALLAEAGYPNGFETEL 360 Query: 361 WSAYTHSTAVKIIQFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPVRLLYIGWS 420 WSAYTHSTAVKI+QFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPVRLLYIGWS Sbjct: 361 WSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPVRLLYIGWS 420 Query: 421 SSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDADIAKALTVTDRKDKEALYKDAQQE 480 SSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDADIAKALT+T+RKDKEALYKDAQQE Sbjct: 421 SSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDADIAKALTLTERKDKEALYKDAQQE 480 Query: 481 VWKDAPWAFLVTEKLLYARNKNLKGVYVMPDQAIEFENIELTK 523 +WKDAPWAFLVTEKLLYARNKNLKGVYVMPDQAIEFENIEL K Sbjct: 481 IWKDAPWAFLVTEKLLYARNKNLKGVYVMPDQAIEFENIELVK 523 >gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 512 Score = 131 bits (329), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 103/310 (33%), Positives = 164/310 (52%), Gaps = 23/310 (7%) Query: 98 IRLKQGVKFQDGTDFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKIVLKE 157 + L+QGV+FQ+G F AD V F+ +P++K + I + L DY V+I LK Sbjct: 96 LDLRQGVQFQNGDKFSADDVVFTFNYAVSPESKAVTRQNTDWIKSVDKLADYKVRINLKG 155 Query: 158 PFSAFINVLAHPSAVMISPAA-LKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVEKFDGY 216 PF A + LA P + I PAA K+ G + + P+GTGP+K V + K GY Sbjct: 156 PFPAALEYLAGP--LPIYPAAYFKKVGLEGFSKAPIGTGPYKVTSVTPGQGVTLVKNPGY 213 Query: 217 WK---KGYPKVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKPNLDVISAP 273 +K +G P + I + + D R+A + TG + + +P +QAD LK+ P L V S Sbjct: 214 FKDSPQGQPTIGNIKFVVIPDPETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGE 273 Query: 274 SIIQRYMSMNTK-----QKPFDNPKVREAINYAINKQALVKVAFNGYATPMDGVVPQ--- 325 ++ +++++T PF + +VR+A+N+AIN++ G + P+ + Sbjct: 274 TMRIGFITLDTTGTSAPNSPFKDVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQF 333 Query: 326 GVDY--AFKTGPWPYDPKKAKALLAEAGYPNGFETELWSAYTHSTAVKIIQFLQQQLAQV 383 G D A K + Y+P KAK LLA AGYPNGF+T++++ A II 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 = 108 bits (271), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 121/502 (24%), Positives = 221/502 (44%), Gaps = 38/502 (7%) Query: 36 KSVTLAVYSTFTTMDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLE 95 +++ +A +++DP N S+ F+ L D + KL+P LA + + D Sbjct: 29 QNLNIAFADPLSSLDPQLNNHAGDRSVDLHFWDLLVQNDYN-KLVPGLAVSWK-NIDPKT 86 Query: 96 YTIRLKQGVKFQDGTDFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEVLND---YTVK 152 + +L+ VK+QDG F AD V + R + + + R ++ D +K Sbjct: 87 WEFKLRPNVKWQDGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIK 146 Query: 153 IVLKEPFSAFINVLAHPSAVMISPAALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVEK 212 + P H + I + + N A +GTGP+KFV + D V +++ Sbjct: 147 TNIPNPDLPLNLASVHIVSKHIGEKSTTENYNSGAAV--IGTGPYKFVSYTPGDRVVMQR 204 Query: 213 FDGYWKKGYPKVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKPNLDV--- 269 D YW G P +++ ++ + + AR+A + +G+ + LK PN+ V Sbjct: 205 NDDYW-NGKPLWEKVNYRYINNGAARTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPY 263 Query: 270 ------ISAPSIIQR---YMSMNTKQKPFDNP----KVREAINYAINKQALVKVAFNGYA 316 + PS Q +++ N ++ NP +VR A++ AIN++AL+ G A Sbjct: 264 NGLRVLLIQPSFHQGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAA 323 Query: 317 TPMDGVVPQGV-DYAFKTGPWPYDPKKAKALLAEAGYPNGFETELWSAY-THSTAVKIIQ 374 T + +P Y + P+D +AK LLA+AG+P+GF+ + + A + +Q Sbjct: 324 TEANQWMPADTFGYNPEIKNIPFDAAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQ 383 Query: 375 FLQQQLAQVGIKAKIQALEAGQRVERVESWQDPATAPVRLLYIGWSSSTGEADWALRPLL 434 + Q ++GIK +++ L R + + + W + TGEA +AL +L Sbjct: 384 AVAQFWTRIGIKTQVEVLPWAAYSSRANKNE------FAVSVLAWGNGTGEASYALVNVL 437 Query: 435 ASESFPPR----LYNTAYYKNDKVDADIAKALTVTDRKDKEALYKDAQQEVWKDAPWAFL 490 S P+ N +Y + VD +A + D +EA+ + A + V ++ L Sbjct: 438 G--SVDPKKGIGASNWNHYSSPAVDKALADSTAEFDAAKREAILRGAAKTVSEEVGVIPL 495 Query: 491 VTEKLLYARNKNLKGVYVMPDQ 512 + ++A K LK + D+ Sbjct: 496 YHYQNIWAAKKGLKVTPISSDR 517 >gi|300310463|ref|YP_003774555.1| dipeptide ABC transporter periplasmic peptide-binding protein [Herbaspirillum seropedicae SmR1] Length = 540 Score = 94.4 bits (233), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 113/474 (23%), Positives = 195/474 (41%), Gaps = 33/474 (6%) Query: 44 STFTTMDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQG 103 ST T+DP + + FY GL D + VLAE +++ D + +T++L++G Sbjct: 76 STADTLDPAKTAHSTDYTRVHMFYNGLTKLDGKLGPQMVLAE-EMLTNDAVTWTVKLRKG 134 Query: 104 VKFQDGTDFK-ADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEVLNDYTVKIVLKEPFSAF 162 V F DG AD V ++ R +P K + ++ + V+I L + Sbjct: 135 VNFHDGKPLTPADVVYSIM-RHKDPATASKVKVVADQFESVKATGPNEVQIKLTSANADL 193 Query: 163 INVLAHPSAVMISPAALKQYGNKDIAFHPVGTGPFKFVEWKQTDYVKVEKFDGYWKKGYP 222 +LA ++I + G + + P GTG FK E+ + + YWK G P Sbjct: 194 PVILATAQFLII------RDGTTNFS-TPNGTGAFKLKEFTPGVRTIGVRNENYWKPGLP 246 Query: 223 KVDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKPNLDVISAPSIIQRYMSM 282 +DE+ + D AR + +G+ + + +K+ P V+ S + M Sbjct: 247 YLDEVELFGIPDEAARVNALLSGDVHWINDVNSRSTGRVKNTPGYTVMETKSGQYTDLVM 306 Query: 283 NTKQKPFDNPKVREAINYAINKQALVKVAFNGYAT-----PMDGVVPQGVDYAFKTGPWP 337 P ++ + Y ++++ + AF GYA P+D P Y P Sbjct: 307 RQDVAPGNSMDFTLGMKYLLDREQIKMAAFRGYAVIANDQPID---PTNRFYFAGLPQRP 363 Query: 338 YDPKKAKALLAEAGYPNGFETELWSAYTHSTAVKIIQFLQQQLAQVGIKAKIQALEAGQR 397 YDP KAK L +AG G + ++ + +V + +QQ A++G+K + +R Sbjct: 364 YDPDKAKFHLGKAGVL-GSTIPIVASVAATGSVDMAVLMQQSAAKIGLKLDV------KR 416 Query: 398 VERVESWQDP-ATAPVRLLYIGWSSSTGEADWALRPLLASESFPPRLYNTAYYKNDKVDA 456 V W + PV I S AD L S++ +N + +KN + D Sbjct: 417 VPADGYWSNQWMKVPVGFGNINPRPS---ADILLTQFFKSDA----QWNESGWKNPQFDQ 469 Query: 457 DIAKALTVTDRKDKEALYKDAQQEVWKDAPWAFLVTEKLLYARNKNLKGVYVMP 510 + A TD ++A+Y D Q + + V L + +KG+ +P Sbjct: 470 LVVAARGETDFTKRKAMYADLQTMIHEKCGLGIPVFIINLEGISTKVKGIDPVP 523 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 85/404 (21%), Positives = 161/404 (39%), Gaps = 38/404 (9%) Query: 10 LSTAKWLAVAALGTTLQFAAAHAFAAKSVTLAVYS--TFTTMDPYDANDTLSLSMAKSFY 67 LS + W A A G A A L V T +DP + + Sbjct: 25 LSASPWHAALAHGDEAGHAHGDIAHAGKDMLTVVGPWELTGLDPTRSGYMFA---RMEVL 81 Query: 68 QGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVKFQDGTDFKADAVKAVFDRVTNP 127 + L D +L P +A + VS DGL++ L+ G+++ DG+ ++ A R Sbjct: 82 ETLLEVDDAGQLQPSVASAWSVSADGLQWRFVLRSGLRYHDGSALTPASILACLQRAQAR 141 Query: 128 DNKLKRYNLFNRIAKTEVLNDYTVKIVLKEPFSAFINVLAHPSAVMISPAALKQYGNKDI 187 L+ + IA V T+ +VL+ PF +L H + +++PA+ GN + Sbjct: 142 PGVLRLAD----IAALRV-EGQTLVVVLRRPFGPLPYLLTHYTTQILAPASFDAQGNV-V 195 Query: 188 AFHPVGTGPFKFVEWKQTDYVKVEKFDGYWKKGYPKVD--EIIWK----PVVDNNARSAM 241 A +G+GPF+ +VE+ G D +++ + V R+ + Sbjct: 196 AI--IGSGPFRIRSIALPQQFEVERVAGSVSGSGAGSDVGKVVQRARYISVSRAETRTLL 253 Query: 242 MQTGEAQFTYPLPYEQADLLKSKPNLDVISAPSIIQRYMSMNTKQKPFDNPKVREAINYA 301 +Q+G+A + L L+ P ++SA + +N + +VR AI+ Sbjct: 254 VQSGQADLAFSLDPPSIRALQDSPRASLLSAMLPRTTLLKLNAGHPLLADVRVRRAISLC 313 Query: 302 INKQALVKVAFNGYATPMDGVVPQGV----DYAFKTGPWPYDPKKAKALLAEAGYPNGFE 357 I ++ + + + P + D A P + ++A++LL +AG+ G + Sbjct: 314 IEREGIARALLRDPDLGATQLFPPSLARWHDAAL--APLRTNLQQARSLLDQAGWRPGSD 371 Query: 358 TELWSAYTHSTAVKIIQF------------LQQQLAQVGIKAKI 389 + A+ + F LQ+++ Q+G+ ++ Sbjct: 372 G-VRRRDGQRMALNLTTFVDRPELPLIATALQEEMRQIGMAVRV 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 0.132 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: 1,587,377 Number of extensions: 64940 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 144 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)