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= 0001.2651.p (447 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transp... 722 0.0 gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transp... 248 8e-67 gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm... 66 6e-12 >gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 452 Score = 722 bits (1864), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/416 (84%), Positives = 377/416 (90%), Gaps = 1/416 (0%) Query: 29 MPRAPAANFEFWSSHAGATAAAVRQLCAGFNAAQHQHHVRCVIPGTYEQTMQKTIAAYRA 88 +PRAPAA+FEFWSSHAGA A AVRQLCAGFNAAQ QH VRCV+PGTYEQTMQKTIA YRA Sbjct: 32 IPRAPAASFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYRA 91 Query: 89 GQQPALVEIYDVGTLDMMLSGAIVPVHQLMAEHGQVVDWQDYLPAIRSYYTDAQGQFDSL 148 QQPALVEIYDVGTLDMMLSGAIVPVHQLMA+HG VDWQDYLPAIR YYTDAQGQFDSL Sbjct: 92 AQQPALVEIYDVGTLDMMLSGAIVPVHQLMADHGYRVDWQDYLPAIRGYYTDAQGQFDSL 151 Query: 149 PFNVSTAVLYLNTDRLRRAGISTLPATWGELEQAARQLRAAGQACPLVSDFNPWIMLEQV 208 PFNVSTAVLYLNTD+LR+AGISTLP+TW ELEQ ARQLRAAGQ CPLVSDFNPWI+LEQV Sbjct: 152 PFNVSTAVLYLNTDQLRQAGISTLPSTWRELEQTARQLRAAGQTCPLVSDFNPWILLEQV 211 Query: 209 STIEGAPIADQDNGHLGLSRHYLFDQGLHLRFMQEVLRWYRQHLLVQGAATRAGGHTLAF 268 STIEGAPIAD DNGH GL+ HYLFDQGLHLRFMQ++ RW++QHLLV+ AATR G HTLAF Sbjct: 212 STIEGAPIADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVEAAATRTGRHTLAF 271 Query: 269 TTGECAMLLDSSSAWDAVAKSGLKNVAVRPLPIHADSTRHNSVPGGASLWVMKGFSREVY 328 TTGECAML DS+SAW A+A+SGL +VAVRPLPIHAD RHNSVPGGASLWVMKGF R+VY Sbjct: 272 TTGECAMLFDSTSAWHAIARSGLPHVAVRPLPIHADGQRHNSVPGGASLWVMKGFDRQVY 331 Query: 329 AAVAAFIAYLQQPQNQLMLVRQTGYLPVTRQVAAQIMDDASGYPPSVVAGIHSLDTAARQ 388 AAVAAFIAYLQQPQNQ +L RQTGYLPVTRQVAAQIMDD YP +VVAGIHSLD AA Q Sbjct: 332 AAVAAFIAYLQQPQNQRLLARQTGYLPVTRQVAAQIMDDPDHYPAAVVAGIHSLD-AASQ 390 Query: 389 CGVGPRLGFFPQLRLAWTEQVQTALAGEQDMRQALARARQRGDGLLQRFRRTYAAP 444 GVGPRLGFFPQLRLAWTEQVQ AL+G+QDM QAL++ARQRGD LLQRFR TYA P Sbjct: 391 PGVGPRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKARQRGDALLQRFRLTYAGP 446 >gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 248 bits (633), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 141/430 (32%), Positives = 220/430 (51%), Gaps = 13/430 (3%) Query: 18 VLALGLCLLLVMPRAPAANFEFWSSHAGATAAAVRQLCAGFNAAQHQHHVRCVIPGTYEQ 77 ++A G+ + A +W S GA V L FN Q + + V GTY++ Sbjct: 7 LIATGVLATITSSAFAATAITWWHSMTGALGERVNALADDFNKTQGDYKIVPVYKGTYDE 66 Query: 78 TMQKTIAAYRAGQQPALVEIYDVGTLDMMLS-GAIVPVHQLMAEHGQVVDWQDYLPAIRS 136 +M IAAYRAG PA++++++VGT M+ + GA+ PV+++M + G+ D Y+PA+ Sbjct: 67 SMSAAIAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAYVPAVAG 126 Query: 137 YYTDAQGQFDSLPFNVSTAVLYLNTDRLRRAGI--STLPATWGELEQAARQLRAAGQACP 194 YY+ +G S PFN ST +++ N D +AG+ P TW E A +++A+G AC Sbjct: 127 YYSTPKGMM-SFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKASGAACA 185 Query: 195 LVSDFNPWIMLEQVSTIEGAPIADQDNGHLGLSRHYLFDQGLHLRFMQEVLRWYRQHLLV 254 + + W+ LE ST +A ++NG GL + LH+R ++ + W +Q Sbjct: 186 YTTTWQSWVHLESFSTWHNVELATKNNGFGGLDARLKMNSPLHVRHIENLSNWAKQGYFT 245 Query: 255 QGAATRAGGHTLAFTTGECAMLLDSSSAWDAVAKSGLKNVAVRPLPIHAD--STRHNSVP 312 A R F GECA++ SSSA+ + K+ V LP + D N+V Sbjct: 246 Y--AGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVATLPYYNDVQGAPQNTVI 303 Query: 313 GGASLWVMKGFSREVYAAVAAFIAYLQQPQNQLMLVRQTGYLPVTRQVAAQIMDDASGY- 371 GGASLWVM G + Y VA F +YL +P+ + TGYLPVT+ AA + +SG+ Sbjct: 304 GGASLWVMNGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTK--AAYELTKSSGFY 361 Query: 372 --PPSVVAGIHSLDTAARQCGVGPRLGFFPQLRLAWTEQVQTALAGEQDMRQALARARQR 429 P + + + G RLG + Q+R + E+++ G++ + AL A +R Sbjct: 362 ERNPGTDVAVKQMIVKTTEKSRGLRLGNYAQVRTVFDEELENVWTGKKSAKDALDSAVKR 421 Query: 430 GDGLLQRFRR 439 GD LL RF + Sbjct: 422 GDELLARFEK 431 >gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 39/150 (26%), Positives = 69/150 (46%), Gaps = 15/150 (10%) Query: 45 GATAAAVRQLCAGFNAAQHQHHVRCVIPGTYEQTMQKTIAAYRAGQQPALVEIYDVGTLD 104 GA + + A F A V+ + GTY++++ K + A++ G P L + Sbjct: 40 GAVTKTIDSMVADFEKAHPDIKVKAIYAGTYQESIVKALTAFKGGTPPTLAVLLSTDLFT 99 Query: 105 MMLSGAIVPVHQLMAEHGQVVDWQDYLPAIRSYY------TDAQGQFDSLPFNVSTAVLY 158 ++ AI+P+ L A + W I +Y + +G+ +PF ST V+Y Sbjct: 100 LIDENAILPIDSL-ASSAEDKKW------IAGFYKGFMENSQTEGKTWGIPFQRSTIVMY 152 Query: 159 LNTDRLRRAGIS--TLPATWGELEQAARQL 186 N + AG++ PA W E+ +AA++L Sbjct: 153 YNKALFKEAGLNPDKAPANWNEMVEAAKKL 182 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 0.323 0.134 0.415 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: 1,418,648 Number of extensions: 58946 Number of successful extensions: 212 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 204 Number of HSP's successfully gapped: 3 Length of query: 447 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 359 Effective length of database: 1,203,190 Effective search space: 431945210 Effective search space used: 431945210 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 132 (55.5 bits)