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= 0001.0101.p (452 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... 912 0.0 gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transp... 251 8e-68 gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm... 69 1e-12 >gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 452 Score = 912 bits (2357), Expect = 0.0, Method: Compositional matrix adjust. Identities = 447/452 (98%), Positives = 450/452 (99%) Query: 1 VKNHRHQGRQRGRSTPAGLISLILGLLLLLAIPRAPAASFEFWSSHAGAMAQAVRQLCAG 60 +KNHRHQGRQRGRSTPAGLISLILGLLLLLAIPRAPAASFEFWSSHAGAMAQAVRQLCAG Sbjct: 1 MKNHRHQGRQRGRSTPAGLISLILGLLLLLAIPRAPAASFEFWSSHAGAMAQAVRQLCAG 60 Query: 61 FNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALVEIYDVGTLDMMLSGAIVPVHQL 120 FNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALVEIYDVGTLDMMLSGAIVPVHQL Sbjct: 61 FNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALVEIYDVGTLDMMLSGAIVPVHQL 120 Query: 121 MADHGYRVDWQDYLPAIRGYYTDAQGQFDSLPFNVSTAVLYLNTDKLRQAGIRTLPSTWR 180 MADHGYRVDWQDYLPAIRGYYTDAQGQFDSLPFNVSTAVLYLNTD+LRQAGI TLPSTWR Sbjct: 121 MADHGYRVDWQDYLPAIRGYYTDAQGQFDSLPFNVSTAVLYLNTDQLRQAGISTLPSTWR 180 Query: 181 ELEQTARQLRAAGQTCPLVSDFNPWILLEQVSTIEGAPIADHDNGHQGLAAHYLFDQGLH 240 ELEQTARQLRAAGQTCPLVSDFNPWILLEQVSTIEGAPIADHDNGHQGLAAHYLFDQGLH Sbjct: 181 ELEQTARQLRAAGQTCPLVSDFNPWILLEQVSTIEGAPIADHDNGHQGLAAHYLFDQGLH 240 Query: 241 LRFMQQLQRWHQQHLLVEAAATRTGRHTLAFTTGECAMLFDSTSAWHAIARSGLPHVAVR 300 LRFMQQLQRWHQQHLLVEAAATRTGRHTLAFTTGECAMLFDSTSAWHAIARSGLPHVAVR Sbjct: 241 LRFMQQLQRWHQQHLLVEAAATRTGRHTLAFTTGECAMLFDSTSAWHAIARSGLPHVAVR 300 Query: 301 PLPMHADGQRHNSVPGGASLWVMKGFDRQVYAAVAAFIAYLQQPQNQRLLARQTGYLPVT 360 PLP+HADGQRHNSVPGGASLWVMKGFDRQVYAAVAAFIAYLQQPQNQRLLARQTGYLPVT Sbjct: 301 PLPIHADGQRHNSVPGGASLWVMKGFDRQVYAAVAAFIAYLQQPQNQRLLARQTGYLPVT 360 Query: 361 RQVATQIMDDPDHYPAAVVAGIHSLDAASQPGVGPRLGFFPQLRLAWTEQVQMALSGQQD 420 RQVA QIMDDPDHYPAAVVAGIHSLDAASQPGVGPRLGFFPQLRLAWTEQVQMALSGQQD Sbjct: 361 RQVAAQIMDDPDHYPAAVVAGIHSLDAASQPGVGPRLGFFPQLRLAWTEQVQMALSGQQD 420 Query: 421 MAQALSKARQRGDALLQRFRLTYAGPDPAPSP 452 MAQALSKARQRGDALLQRFRLTYAGPDPAPSP Sbjct: 421 MAQALSKARQRGDALLQRFRLTYAGPDPAPSP 452 >gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 251 bits (641), Expect = 8e-68, Method: Compositional matrix adjust. Identities = 142/432 (32%), Positives = 220/432 (50%), Gaps = 12/432 (2%) Query: 22 LILGLLLLLAIPRAPAASFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQT 81 + G+L + A + +W S GA+ + V L FN Q +++ V GTY+++ Sbjct: 8 IATGVLATITSSAFAATAITWWHSMTGALGERVNALADDFNKTQGDYKIVPVYKGTYDES 67 Query: 82 MQKTIATYRAAQQPALVEIYDVGTLDMMLS-GAIVPVHQLMADHGYRVDWQDYLPAIRGY 140 M IA YRA PA++++++VGT M+ + GA+ PV+++M G + D Y+PA+ GY Sbjct: 68 MSAAIAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAYVPAVAGY 127 Query: 141 YTDAQGQFDSLPFNVSTAVLYLNTDKLRQAGI--RTLPSTWRELEQTARQLRAAGQTCPL 198 Y+ +G S PFN ST +++ N D +AG+ P TW+E A +++A+G C Sbjct: 128 YSTPKGMM-SFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKASGAACAY 186 Query: 199 VSDFNPWILLEQVSTIEGAPIADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVE 258 + + W+ LE ST +A +NG GL A + LH+R ++ L W +Q Sbjct: 187 TTTWQSWVHLESFSTWHNVELATKNNGFGGLDARLKMNSPLHVRHIENLSNWAKQGYFTY 246 Query: 259 AAATRTGRHTLAFTTGECAMLFDSTSAWHAIARSGLPHVAVRPLPMHAD--GQRHNSVPG 316 A R F GECA++ S+SA+ I ++ V LP + D G N+V G Sbjct: 247 AG--RKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVATLPYYNDVQGAPQNTVIG 304 Query: 317 GASLWVMKGFDRQVYAAVAAFIAYLQQPQNQRLLARQTGYLPVTRQVATQIMDDPDHY-- 374 GASLWVM G Y VA F +YL +P+ + TGYLPVT+ A ++ Y Sbjct: 305 GASLWVMNGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTK-AAYELTKSSGFYER 363 Query: 375 -PAAVVAGIHSLDAASQPGVGPRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKARQRGD 433 P VA + ++ G RLG + Q+R + E+++ +G++ AL A +RGD Sbjct: 364 NPGTDVAVKQMIVKTTEKSRGLRLGNYAQVRTVFDEELENVWTGKKSAKDALDSAVKRGD 423 Query: 434 ALLQRFRLTYAG 445 LL RF G Sbjct: 424 ELLARFEKANKG 435 >gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 68.6 bits (166), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 94/430 (21%), Positives = 165/430 (38%), Gaps = 61/430 (14%) Query: 39 SFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPALV 98 SF + + GA+ + + + A F A +V+ + GTY++++ K + ++ P L Sbjct: 31 SFYYPVAVGGAVTKTIDSMVADFEKAHPDIKVKAIYAGTYQESIVKALTAFKGGTPPTLA 90 Query: 99 EIYDVGTLDMMLSGAIVPVHQLMADHGYRVDWQDYLPAIRGYY------TDAQGQFDSLP 152 + ++ AI+P+ L A W I G+Y + +G+ +P Sbjct: 91 VLLSTDLFTLIDENAILPIDSL-ASSAEDKKW------IAGFYKGFMENSQTEGKTWGIP 143 Query: 153 FNVSTAVLYLNTDKLRQAGIR--TLPSTWRELEQTARQLR---AAGQTCPL-----VSDF 202 F ST V+Y N ++AG+ P+ W E+ + A++L AAG + F Sbjct: 144 FQRSTIVMYYNKALFKEAGLNPDKAPANWNEMVEAAKKLTKRDAAGNVTQWGVKIPSTGF 203 Query: 203 NPWILLEQVSTIEGAPIADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVEAAAT 262 W+ Q T + + G + FD+ ++ +Q + ++ A + Sbjct: 204 GYWMF--QAMTASNDTLLMNSAGTKT-----YFDKPGAVQALQHWVDLTTKEKVMPAGSI 256 Query: 263 RTGRHTLAFTTGECAMLFDSTSAWHAIARSGLPHVAVRPLPMHADGQRHNSVP-GGASLW 321 G F + AM++ +T I + V LP G +H P GG + + Sbjct: 257 EWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLP----GIKHPGSPTGGGNFY 312 Query: 322 VMKGFDRQVYAAVAAFIAYLQQPQNQRLLARQTGYLPVTRQVATQIMDDPD------HYP 375 V A FI + +P + TGY+ RQ A D P+ P Sbjct: 313 VFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYV-APRQDA---WDTPEMKKYLQDVP 368 Query: 376 AAVVA------GIHSLDAASQPGVGPRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKAR 429 AA VA G+ L V L + +Q ALS + AL A+ Sbjct: 369 AADVAREQMKYGVAELSTHDNQRVTKALN----------DNLQAALSDTKTPEAALKDAQ 418 Query: 430 QRGDALLQRF 439 + + +L+ + Sbjct: 419 REAERILRSY 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 0.322 0.134 0.413 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: 1,426,650 Number of extensions: 59376 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 212 Number of HSP's successfully gapped: 3 Length of query: 452 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 364 Effective length of database: 1,203,190 Effective search space: 437961160 Effective search space used: 437961160 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 (22.0 bits) S2: 132 (55.5 bits)