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= 0001.3049.p (430 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm... 834 0.0 gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transp... 139 3e-34 gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transp... 72 1e-13 gi|300309781|ref|YP_003773873.1| sugar ABC transporter periplasm... 57 3e-09 >gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 834 bits (2155), Expect = 0.0, Method: Compositional matrix adjust. Identities = 408/430 (94%), Positives = 422/430 (98%) Query: 1 MRRTFLKSLAAVAITAVFSAPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKANPDI 60 MRRT LKSLAA+A++A F PVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKA+PDI Sbjct: 1 MRRTVLKSLAALAVSAAFCTPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKAHPDI 60 Query: 61 KVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLIDENAIVPIDSLASSADDKK 120 KVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLIDENAI+PIDSLASSA+DKK Sbjct: 61 KVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLIDENAILPIDSLASSAEDKK 120 Query: 121 WIAGFYKGFMENSQTEGKTWGIPFQRSTIVMYYNKNLFKEAGLNPDKAPANWNEMVEAAK 180 WIAGFYKGFMENSQTEGKTWGIPFQRSTIVMYYNK LFKEAGLNPDKAPANWNEMVEAAK Sbjct: 121 WIAGFYKGFMENSQTEGKTWGIPFQRSTIVMYYNKALFKEAGLNPDKAPANWNEMVEAAK 180 Query: 181 KLTKRDASGNVSQWGVKIPSTGFGYWMFQAMSASNDTILMNSAGTKTYFDQPGAVQALQH 240 KLTKRDA+GNV+QWGVKIPSTGFGYWMFQAM+ASNDT+LMNSAGTKTYFD+PGAVQALQH Sbjct: 181 KLTKRDAAGNVTQWGVKIPSTGFGYWMFQAMTASNDTLLMNSAGTKTYFDKPGAVQALQH 240 Query: 241 WVDLTTRDKVMPVGSIEWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLPGIK 300 WVDLTT++KVMP GSIEWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLPGIK Sbjct: 241 WVDLTTKEKVMPAGSIEWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLPGIK 300 Query: 301 HPGSPTGGGNFYVFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYVAPRQDAWDTPEM 360 HPGSPTGGGNFYVFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYVAPRQDAWDTPEM Sbjct: 301 HPGSPTGGGNFYVFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYVAPRQDAWDTPEM 360 Query: 361 KKYLQDVPAADVAREQMKYGVAELSTHDNQRVTKALNDNLQAALSGTKTPQAALKDAQRE 420 KKYLQDVPAADVAREQMKYGVAELSTHDNQRVTKALNDNLQAALS TKTP+AALKDAQRE Sbjct: 361 KKYLQDVPAADVAREQMKYGVAELSTHDNQRVTKALNDNLQAALSDTKTPEAALKDAQRE 420 Query: 421 AERILRSYGH 430 AERILRSYG Sbjct: 421 AERILRSYGR 430 >gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 139 bits (351), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 112/444 (25%), Positives = 200/444 (45%), Gaps = 39/444 (8%) Query: 6 LKSLAAVAITAVFSAPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKANPDIKVKAI 65 +K+L A + A ++ AA I++++ + GA+ + ++++ DF K D K+ + Sbjct: 4 MKTLIATGVLATITSSAFAATA--ITWWHSMT--GALGERVNALADDFNKTQGDYKIVPV 59 Query: 66 YAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFTLI-DENAIVPIDSLASSADDK----- 119 Y GTY ES+ A+ A++ G P + + T+I + A+ P+ + A +K Sbjct: 60 YKGTYDESMSAAIAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNA 119 Query: 120 --KWIAGFY---KGFMENSQTEGKTWGIPFQRSTIVMYYNKNLFKEAGLNPDKAPANWNE 174 +AG+Y KG M PF ST +M+YNK++F +AGL+P+K P W E Sbjct: 120 YVPAVAGYYSTPKGMMS----------FPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQE 169 Query: 175 MVEAAKKLTKRDAS-GNVSQWGVKIPSTGFGYWMFQAMSASNDTILMNSAGTKTYFDQPG 233 V A K+ A+ + W + F W ++ N+ A K + P Sbjct: 170 FVGMAAKIKASGAACAYTTTWQSWVHLESFSTWHNVELATKNNGFGGLDARLK--MNSPL 227 Query: 234 AVQALQHWVDLTTRDKVMPVGSIEWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGV 293 V+ +++ + + G + F + A++ ++ +IR NA F FGV Sbjct: 228 HVRHIENLSNWAKQGYFTYAGRKD--EANAKFNAGECAIITGSSSAYADIRKNAKFKFGV 285 Query: 294 AMLPGIKH-PGSP----TGGGNFYVFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYV 348 A LP G+P GG + +V N E + KF + ++P AA+W TGY+ Sbjct: 286 ATLPYYNDVQGAPQNTVIGGASLWVMNGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYL 345 Query: 349 APRQDAWDTPEMKKYLQDVPAADVAREQMKYGVAE----LSTHDNQRVTKALNDNLQAAL 404 + A++ + + + P DVA +QM E L + +V ++ L+ Sbjct: 346 PVTKAAYELTKSSGFYERNPGTDVAVKQMIVKTTEKSRGLRLGNYAQVRTVFDEELENVW 405 Query: 405 SGTKTPQAALKDAQREAERILRSY 428 +G K+ + AL A + + +L + Sbjct: 406 TGKKSAKDALDSAVKRGDELLARF 429 >gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 452 Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 95/430 (22%), Positives = 167/430 (38%), Gaps = 61/430 (14%) Query: 31 SFYYPVAVGGAVTKTIDSMVADFEKANPDIKVKAIYAGTYQESIVKALTAFKGGTPPTLA 90 SF + + GA+ + + + A F A +V+ + GTY++++ K + ++ P L Sbjct: 39 SFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALV 98 Query: 91 VLLSTDLFTLIDENAIVPIDSL-ASSADDKKW------IAGFYKGFMENSQTEGKTWGIP 143 + ++ AIVP+ L A W I G+Y + +G+ +P Sbjct: 99 EIYDVGTLDMMLSGAIVPVHQLMADHGYRVDWQDYLPAIRGYY------TDAQGQFDSLP 152 Query: 144 FQRSTIVMYYNKNLFKEAGLNPDKAPANWNEMVEAAKKLTKRDASGNVSQWGVKIPSTGF 203 F ST V+Y N + ++AG++ P+ W E+ + A++L A+G + F Sbjct: 153 FNVSTAVLYLNTDQLRQAGIS--TLPSTWRELEQTARQLR---AAGQTCPL-----VSDF 202 Query: 204 GYWMF--QAMSASNDTILMNSAGTK-----TYFDQPGAVQALQHWVDLTTRDKVMPVGSI 256 W+ Q + I + G + FDQ ++ +Q + ++ + Sbjct: 203 NPWILLEQVSTIEGAPIADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVEAAAT 262 Query: 257 EWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLP----GIKHPGSPTGGGNFY 312 G F + AM++ +T I + V LP G +H P GG + + Sbjct: 263 RTGRHTLAFTTGECAMLFDSTSAWHAIARSGLPHVAVRPLPIHADGQRHNSVP-GGASLW 321 Query: 313 VFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYV-APRQDA---WDTPEMKKYLQDVP 368 V A FI + +P + TGY+ RQ A D P+ P Sbjct: 322 VMKGFDRQVYAAVAAFIAYLQQPQNQRLLARQTGYLPVTRQVAAQIMDDPD------HYP 375 Query: 369 AADVAREQMKYGVAELSTHDNQRVTKALN----------DNLQAALSGTKTPQAALKDAQ 418 AA VA G+ L V L + +Q ALSG + AL A+ Sbjct: 376 AAVVA------GIHSLDAASQPGVGPRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKAR 429 Query: 419 REAERILRSY 428 + + +L+ + Sbjct: 430 QRGDALLQRF 439 >gi|300309781|ref|YP_003773873.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 451 Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 45/178 (25%), Positives = 84/178 (47%), Gaps = 14/178 (7%) Query: 8 SLAAVAITAVFSAPVLAANPVEISFYYPVAVGGAVTKTIDSMVADFEKANPDIKVKAIYA 67 +LAA AI+ +F+A + A PV ++ ++ + + FEKANPDIK++ + Sbjct: 18 TLAAAAISTLFAAGLAQAEPVTLNI---ASINNPDMIELQKLAPAFEKANPDIKLRWV-- 72 Query: 68 GTYQESIVKALTAFKGGTPPTLAVLLSTDLF---TLIDENAIVPIDSLASSADDKKWIAG 124 T +ES+++ T L++ + + + P+ L + D+ A Sbjct: 73 -TMEESVLRQRLTTDIATNSGQFDLMTIGAYEAPIWAKKGWLAPMTGLPADYDE----AD 127 Query: 125 FYKGFMENSQTEGKTWGIPFQRSTIVMYYNKNLFKEAGLNPDKAPANWNEMVEAAKKL 182 K E +GK + +PF + + YY K+LF++ L + P W+E+ + A +L Sbjct: 128 LIKPVREGLSVDGKLYALPFYAESSMTYYRKDLFEQKKLTMPQRP-TWDEIAKLAAQL 184 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 0.316 0.129 0.384 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: 1,384,477 Number of extensions: 57539 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 4 Length of query: 430 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 342 Effective length of database: 1,203,190 Effective search space: 411490980 Effective search space used: 411490980 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 (21.6 bits) S2: 132 (55.5 bits)