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= 0117.0022.p (412 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transp... 744 0.0 gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transp... 229 5e-61 gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm... 126 4e-30 >gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 744 bits (1922), Expect = 0.0, Method: Compositional matrix adjust. Identities = 355/431 (82%), Positives = 383/431 (88%), Gaps = 19/431 (4%) Query: 1 VKTFAAAALLATMTSSAFAVTDIAWWHSMTGALGERVNAMADEFNKSQSDYKVTPVYKGT 60 +KT A +LAT+TSSAFA T I WWHSMTGALGERVNA+AD+FNK+Q DYK+ PVYKGT Sbjct: 4 MKTLIATGVLATITSSAFAATAITWWHSMTGALGERVNALADDFNKTQGDYKIVPVYKGT 63 Query: 61 YDESMAAAIAAY-------------------LYSKGAIKPVYEVMQQAGEKFDQNAYVPA 101 YDESM+AAIAAY +Y+KGA+KPVYEVM QAGEKFDQNAYVPA Sbjct: 64 YDESMSAAIAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAYVPA 123 Query: 102 VSGYYSTAKGMMSFPFNSSTTIMFYNKDLFAKAGLDPNKPPATWQEFVGMAAKMKASGIT 161 V+GYYST KGMMSFPFNSSTTIMFYNKD+FAKAGLDP KPP TWQEFVGMAAK+KASG Sbjct: 124 VAGYYSTPKGMMSFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKASGAA 183 Query: 162 CPYTTTWQSWVHLESFSAWHNTETASKSNGFGGLDARLKINGPLQVRHIENMSNWAKQGY 221 C YTTTWQSWVHLESFS WHN E A+K+NGFGGLDARLK+N PL VRHIEN+SNWAKQGY Sbjct: 184 CAYTTTWQSWVHLESFSTWHNVELATKNNGFGGLDARLKMNSPLHVRHIENLSNWAKQGY 243 Query: 222 FIYAGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVAPLPYYSDVPGAPQNTVI 281 F YAGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVA LPYY+DV GAPQNTVI Sbjct: 244 FTYAGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVATLPYYNDVQGAPQNTVI 303 Query: 282 GGASLWVMGGKKADEYKGVAKFFTYLSKPEVQAKWHQETGYLPVTKAAYEITQKSGFYER 341 GGASLWVM GKKADEYKGVAKFF+YLSKPEV AKWHQ+TGYLPVTKAAYE+T+ SGFYER Sbjct: 304 GGASLWVMNGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTKAAYELTKSSGFYER 363 Query: 342 NPGTDVAVKQMIVKTTDKSRGIRLGNYAQIRTVIDEELENVWTGKKAPKEALDSAVKRGD 401 NPGTDVAVKQMIVKTT+KSRG+RLGNYAQ+RTV DEELENVWTGKK+ K+ALDSAVKRGD Sbjct: 364 NPGTDVAVKQMIVKTTEKSRGLRLGNYAQVRTVFDEELENVWTGKKSAKDALDSAVKRGD 423 Query: 402 ELLARFEKANK 412 ELLARFEKANK Sbjct: 424 ELLARFEKANK 434 >gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 452 Score = 229 bits (583), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 134/406 (33%), Positives = 202/406 (49%), Gaps = 29/406 (7%) Query: 25 WWHSMTGALGERVNAMADEFNKSQSDYKVTPVYKGTYDESMAAAIAAY------------ 72 +W S GA+ + V + FN +Q ++V V GTY+++M IA Y Sbjct: 42 FWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALVEIY 101 Query: 73 ------LYSKGAIKPVYEVMQQAGEKFDQNAYVPAVSGYYSTAKGMM-SFPFNSSTTIMF 125 + GAI PV+++M G + D Y+PA+ GYY+ A+G S PFN ST +++ Sbjct: 102 DVGTLDMMLSGAIVPVHQLMADHGYRVDWQDYLPAIRGYYTDAQGQFDSLPFNVSTAVLY 161 Query: 126 YNKDLFAKAGLDPNKPPATWQEFVGMAAKMKASGITCPYTTTWQSWVHLESFSAWHNTET 185 N D +AG+ + P+TW+E A +++A+G TCP + + W+ LE S Sbjct: 162 LNTDQLRQAGI--STLPSTWRELEQTARQLRAAGQTCPLVSDFNPWILLEQVSTIEGAPI 219 Query: 186 ASKSNGFGGLDARLKINGPLQVRHIENMSNWAKQGYFIYAG--RKDEANAKFNAGECAII 243 A NG GL A + L +R ++ + W +Q + A R F GECA++ Sbjct: 220 ADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVEAAATRTGRHTLAFTTGECAML 279 Query: 244 TGSSSAYADIRKNAKFKFGVAPLPYYSDVPGAPQNTVIGGASLWVMGGKKADEYKGVAKF 303 S+SA+ I ++ V PLP ++D G N+V GGASLWVM G Y VA F Sbjct: 280 FDSTSAWHAIARSGLPHVAVRPLPIHAD--GQRHNSVPGGASLWVMKGFDRQVYAAVAAF 337 Query: 304 FTYLSKPEVQAKWHQETGYLPVTK-AAYEITQKSGFYERNPGTDVAVKQMIVKTTDKSRG 362 YL +P+ Q ++TGYLPVT+ A +I Y P VA + + G Sbjct: 338 IAYLQQPQNQRLLARQTGYLPVTRQVAAQIMDDPDHY---PAAVVAGIHSLDAASQPGVG 394 Query: 363 IRLGNYAQIRTVIDEELENVWTGKKAPKEALDSAVKRGDELLARFE 408 RLG + Q+R E+++ +G++ +AL A +RGD LL RF Sbjct: 395 PRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKARQRGDALLQRFR 440 >gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 126 bits (316), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 104/405 (25%), Positives = 176/405 (43%), Gaps = 44/405 (10%) Query: 31 GALGERVNAMADEFNKSQSDYKVTPVYKGTYDESMAAAIAAYLYSKGAIKPVYEVMQQAG 90 GA+ + +++M +F K+ D KV +Y GTY ES+ A+ A+ KG P V+ Sbjct: 40 GAVTKTIDSMVADFEKAHPDIKVKAIYAGTYQESIVKALTAF---KGGTPPTLAVLLSTD 96 Query: 91 --EKFDQNAYVPA------------VSGYYSTAKGMMS----------FPFNSSTTIMFY 126 D+NA +P ++G+Y KG M PF ST +M+Y Sbjct: 97 LFTLIDENAILPIDSLASSAEDKKWIAGFY---KGFMENSQTEGKTWGIPFQRSTIVMYY 153 Query: 127 NKDLFAKAGLDPNKPPATWQEFVGMAAKMKASGITCPYTTTWQSWVHLESFSAWHNTETA 186 NK LF +AGL+P+K PA W E V A K+ T W + F W Sbjct: 154 NKALFKEAGLNPDKAPANWNEMVEAAKKLTKRD-AAGNVTQWGVKIPSTGFGYWMFQAMT 212 Query: 187 SKSNGFGGLDARLK--INGPLQVRHIENMSNWAKQGYFIYAGRKD--EANAKFNAGECAI 242 + ++ A K + P V+ +++ + + + AG + F + A+ Sbjct: 213 ASNDTLLMNSAGTKTYFDKPGAVQALQHWVDLTTKEKVMPAGSIEWGTTPKDFLEQKAAM 272 Query: 243 ITGSSSAYADIRKNAKFKFGVAPLPYYSDVPGAPQNTVIGGASLWVMGGKKADEYKGVAK 302 + ++ +IR NA F FGVA LP PG+P GG + +V E + K Sbjct: 273 VWTTTGNLTNIRTNASFPFGVAMLPGIKH-PGSP----TGGGNFYVFNKTSPAEQQAAMK 327 Query: 303 FFTYLSKPEVQAKWHQETGYLPVTKAAYEITQKSGFYERNPGTDVAVKQMIVKTTDKSRG 362 F + ++P A+W TGY+ + A++ + + + P DVA +QM + S Sbjct: 328 FIRFATEPARAAQWSIATGYVAPRQDAWDTPEMKKYLQDVPAADVAREQMKYGVAELST- 386 Query: 363 IRLGNYAQIRTVIDEELENVWTGKKAPKEALDSAVKRGDELLARF 407 + ++ +++ L+ + K P+ AL A + + +L + Sbjct: 387 ---HDNQRVTKALNDNLQAALSDTKTPEAALKDAQREAERILRSY 428 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 0.315 0.129 0.385 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: 1,252,465 Number of extensions: 52301 Number of successful extensions: 146 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 3 Length of query: 412 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 324 Effective length of database: 1,203,190 Effective search space: 389833560 Effective search space used: 389833560 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)