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= 0001.1369.p (515 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter perip... 802 0.0 gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip... 98 1e-21 gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip... 81 2e-16 >gi|300310860|ref|YP_003774952.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 802 bits (2072), Expect = 0.0, Method: Compositional matrix adjust. Identities = 414/524 (79%), Positives = 456/524 (87%), Gaps = 13/524 (2%) Query: 1 MLALLAAGTAPLAWAHGDEASHAH-PISPGGRDMLTVVGPWELTGLDPARSGYMFARMEV 59 + A L+A A AHGDEA HAH I+ G+DMLTVVGPWELTGLDP RSGYMFARMEV Sbjct: 21 LAATLSASPWHAALAHGDEAGHAHGDIAHAGKDMLTVVGPWELTGLDPTRSGYMFARMEV 80 Query: 60 LQTLLEVDDAGQLRPALARTWEVSADGLQWRFALQAGRRYHDGSVVTPASVLACLQRAAV 119 L+TLLEVDDAGQL+P++A W VSADGLQWRF L++G RYHDGS +TPAS+LACLQRA Sbjct: 81 LETLLEVDDAGQLQPSVASAWSVSADGLQWRFVLRSGLRYHDGSALTPASILACLQRAQA 140 Query: 120 RPGVLQLASITAMSVQESVLVVSLSKPFGPLPYLLTHYSTQILAPSSFDAHGNVVAIVGS 179 RPGVL+LA I A+ V+ LVV L +PFGPLPYLLTHY+TQILAP+SFDA GNVVAI+GS Sbjct: 141 RPGVLRLADIAALRVEGQTLVVVLRRPFGPLPYLLTHYTTQILAPASFDAQGNVVAIIGS 200 Query: 180 GPFRIQSISLPQQFDVERVAPGP---------DKAIQRARYISVSRAETRTLLVQSGQAE 230 GPFRI+SI+LPQQF+VERVA K +QRARYISVSRAETRTLLVQSGQA+ Sbjct: 201 GPFRIRSIALPQQFEVERVAGSVSGSGAGSDVGKVVQRARYISVSRAETRTLLVQSGQAD 260 Query: 231 LAFSLDPPSIRALQESPRARLLSAMLPRTTILKLNAGHPFLADVRVRRAISLCMEREGIA 290 LAFSLDPPSIRALQ+SPRA LLSAMLPRTT+LKLNAGHP LADVRVRRAISLC+EREGIA Sbjct: 261 LAFSLDPPSIRALQDSPRASLLSAMLPRTTLLKLNAGHPLLADVRVRRAISLCIEREGIA 320 Query: 291 RALLRDPDLGATQLFPPSLTRWHDPQLAPLHTDLKQARRLLEEAGWRLGADGVRWRDGRK 350 RALLRDPDLGATQLFPPSL RWHD LAPL T+L+QAR LL++AGWR G+DGVR RDG++ Sbjct: 321 RALLRDPDLGATQLFPPSLARWHDAALAPLRTNLQQARSLLDQAGWRPGSDGVRRRDGQR 380 Query: 351 LELSLTTFVDRPELPLIATALQEEMRQIGIAVRVVIGNSSDIPAGHRSGALQMALAARNY 410 + L+LTTFVDRPELPLIATALQEEMRQIG+AVRVVIGNSSDIPAGHRSG LQMALAARNY Sbjct: 381 MALNLTTFVDRPELPLIATALQEEMRQIGMAVRVVIGNSSDIPAGHRSGQLQMALAARNY 440 Query: 411 GNLPEPVASLLQDFGPQGGDWGAMGWDNTEVPALLARLAQLPAMPAGGADSGRAERARIV 470 GNLP+PVASLLQDFGPQGGDWGAMGWDN EVPALLARLA PA A G AERARIV Sbjct: 441 GNLPDPVASLLQDFGPQGGDWGAMGWDNQEVPALLARLAATPAD---AAAKGNAERARIV 497 Query: 471 ALLQEQLPVIPVVWYRQTCAVSRRLQGASLDPFERSYRLSYLQW 514 ALLQEQLPVIPVVWYRQTCAVSRR++GAS+DPFERSYR+S LQW Sbjct: 498 ALLQEQLPVIPVVWYRQTCAVSRRVRGASIDPFERSYRISSLQW 541 >gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 528 Score = 98.2 bits (243), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 124/500 (24%), Positives = 215/500 (43%), Gaps = 74/500 (14%) Query: 42 LTGLDPARSGYMFARMEVLQ--TLLEVDDAGQLRPALARTWEVSADGLQWRFALQAGRRY 99 L+ LDP + + R L LL +D +L P LA +W+ + D W F L+ ++ Sbjct: 39 LSSLDPQLNNHAGDRSVDLHFWDLLVQNDYNKLVPGLAVSWK-NIDPKTWEFKLRPNVKW 97 Query: 100 HDGSVVTPASVLACLQRAAVRPGVL--------QLASITAMSVQESVLVVSLSKPFGPLP 151 DG T V+ QRA PG + + S+TA V+ ++ P PL Sbjct: 98 QDGKPFTADDVIFSYQRARAVPGSVATFAGYLRTVESVTAKDPLTLVIKTNIPNPDLPLN 157 Query: 152 YLLTH-YSTQILAPSSFDAHGNVVAIVGSGPFRIQS------ISLPQQFDVERVAPGPDK 204 H S I S+ + + + A++G+GP++ S + + + D P +K Sbjct: 158 LASVHIVSKHIGEKSTTENYNSGAAVIGTGPYKFVSYTPGDRVVMQRNDDYWNGKPLWEK 217 Query: 205 AIQRARYISVSRAETRTLLVQSGQAELAFSLDPPSIRALQESPRARLLSAMLPRTTILK- 263 RYI+ A T LL SG ++ + + L++SP ++ R +++ Sbjct: 218 V--NYRYINNGAARTAALL--SGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQP 273 Query: 264 -LNAG-HPFLAD-------------VRVRRAISLCMEREGIARALLRDPDLGATQLFPPS 308 + G PF+ D VRVRRA+SL + R+ + +L+ A Q P Sbjct: 274 SFHQGPSPFITDNNGKQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWMPAD 333 Query: 309 LTRWHDPQLAPLHTDLKQARRLLEEAGWRLGADGVRWRDGRKLELSLTTFVDR-PELPLI 367 T ++P++ + D QA++LL +AG + DG KL + + DR P+ P Sbjct: 334 -TFGYNPEIKNIPFDAAQAKKLLADAG---------FPDGFKLTIHVPN--DRYPQAPET 381 Query: 368 ATALQEEMRQIGIAVRVVIGNSSDIP---AGHRSGALQMALAARNYGN----LPEPVASL 420 A+ + +IGI +V + +P R+ + A++ +GN + ++ Sbjct: 382 MQAVAQFWTRIGIKTQVEV-----LPWAAYSSRANKNEFAVSVLAWGNGTGEASYALVNV 436 Query: 421 LQDFGPQGGDWGAMGWDNTEVPALLARLAQLPAMPAGGADSGRAERARIV----ALLQEQ 476 L P+ G GA W++ PA+ LA A+ A+R I+ + E+ Sbjct: 437 LGSVDPKKG-IGASNWNHYSSPAVDKALAD------STAEFDAAKREAILRGAAKTVSEE 489 Query: 477 LPVIPVVWYRQTCAVSRRLQ 496 + VIP+ Y+ A + L+ Sbjct: 490 VGVIPLYHYQNIWAAKKGLK 509 >gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 523 Score = 81.3 bits (199), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 82/361 (22%), Positives = 152/361 (42%), Gaps = 35/361 (9%) Query: 42 LTGLDPARSGYMFA---RMEVLQTLLEVDDAGQLRPALARTWEVSADGLQWRFALQAGRR 98 T LDP + + Q L D +L P LA + VS DGL++ L+ G + Sbjct: 46 FTTLDPYDANDTLSLSMAKSFYQGLFGFDKDMKLIPVLAEGYLVSKDGLEYTIRLKQGVK 105 Query: 99 YHDGSVVTPASVLACLQRAAVRPGVLQLASITAMSVQESVL-----VVSLSKPFGPLPYL 153 + DG+V +V A R L+ ++ + +L V L +PF + Sbjct: 106 FQDGTVFKADAVKAVFDRVTNPDNKLKRYNLFNRIAKTEILNDYTVKVVLKEPFSAFINV 165 Query: 154 LTHYSTQILAPSSFDAHGNV-VAI--VGSGPFRIQSISLPQQFDVERVA-------PGPD 203 L H S +++P++ +GN +A VG+GPF+ +Q D +VA PG Sbjct: 166 LAHPSAVMISPTALKQYGNKDIAFHPVGTGPFKFVEW---KQTDYVKVAKFDGYWKPGYP 222 Query: 204 KAIQRARYISVSRAETRTLLVQSGQAELAFSLDPPSIRALQESPRARLLSAMLPRTTILK 263 K + + V R+ ++Q+G+A+ + L L+ +++A + Sbjct: 223 K-VDEIIWKPVVDNNARSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMS 281 Query: 264 LNAGHPFLADVRVRRAISLCMEREGIARALLRDPDLGATQLFPPSLTRWHDPQLAPLHTD 323 +N + +VR AI+ + ++ + + + + P + + + P D Sbjct: 282 MNTKQKPFDNPKVREAINYAINKQALVKVAFNGYAVPMDGVVPQGVDYAY--KTGPWPYD 339 Query: 324 LKQARRLLEEAGWRLGADGVRWRDGRKLELSLTTFVDRPELPLIATALQEEMRQIGIAVR 383 +K+A+ LL EAG+ G + W + +T V I LQ+++ Q+GI + Sbjct: 340 VKKAKALLAEAGYPNGFETELWS-----AYTHSTAVK------IVQFLQQQLAQVGIKAK 388 Query: 384 V 384 + Sbjct: 389 I 389 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 0.321 0.135 0.408 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: 1,645,395 Number of extensions: 69753 Number of successful extensions: 260 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 253 Number of HSP's successfully gapped: 3 Length of query: 515 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 426 Effective length of database: 1,198,455 Effective search space: 510541830 Effective search space used: 510541830 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 133 (55.8 bits)