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= 0001.3706.p (437 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... 867 0.0 gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transp... 249 3e-67 gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm... 137 2e-33 >gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 867 bits (2241), Expect = 0.0, Method: Compositional matrix adjust. Identities = 412/437 (94%), Positives = 427/437 (97%) Query: 1 MNMMKKLIATGVLATITSSAFAATEITWWHSMTGALGERVNALADDFNKSQSDYKVVPIY 60 MNMMK LIATGVLATITSSAFAAT ITWWHSMTGALGERVNALADDFNK+Q DYK+VP+Y Sbjct: 1 MNMMKTLIATGVLATITSSAFAATAITWWHSMTGALGERVNALADDFNKTQGDYKIVPVY 60 Query: 61 KGQYDESMSAAIAAYRAGNAPDILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAY 120 KG YDESMSAAIAAYRAGNAP ILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAY Sbjct: 61 KGTYDESMSAAIAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAY 120 Query: 121 VPAIAGYYSTPKGMMSFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKAS 180 VPA+AGYYSTPKGMMSFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKAS Sbjct: 121 VPAVAGYYSTPKGMMSFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKAS 180 Query: 181 GASCVYTTTWQSWVHLESFSTWHNVELASKNNGFGGLDARLKMNSPLHVRHIENLANWAK 240 GA+C YTTTWQSWVHLESFSTWHNVELA+KNNGFGGLDARLKMNSPLHVRHIENL+NWAK Sbjct: 181 GAACAYTTTWQSWVHLESFSTWHNVELATKNNGFGGLDARLKMNSPLHVRHIENLSNWAK 240 Query: 241 QGYFTYAGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVAPLPYYSDVPGAPQN 300 QGYFTYAGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVA LPYY+DV GAPQN Sbjct: 241 QGYFTYAGRKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVATLPYYNDVQGAPQN 300 Query: 301 TVIGGASLWVMSGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTKAAYELTRQSGF 360 TVIGGASLWVM+GKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTKAAYELT+ SGF Sbjct: 301 TVIGGASLWVMNGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTKAAYELTKSSGF 360 Query: 361 YDRNPGTDVAVKQMIVKTTEKSRGLRLGNYVQIRTVFDEELENVWTGKKTAKEALDSAVK 420 Y+RNPGTDVAVKQMIVKTTEKSRGLRLGNY Q+RTVFDEELENVWTGKK+AK+ALDSAVK Sbjct: 361 YERNPGTDVAVKQMIVKTTEKSRGLRLGNYAQVRTVFDEELENVWTGKKSAKDALDSAVK 420 Query: 421 RGDELLARFERANKGNQ 437 RGDELLARFE+ANKGNQ Sbjct: 421 RGDELLARFEKANKGNQ 437 >gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 452 Score = 249 bits (636), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 139/412 (33%), Positives = 216/412 (52%), Gaps = 12/412 (2%) Query: 23 ATEITWWHSMTGALGERVNALADDFNKSQSDYKVVPIYKGQYDESMSAAIAAYRAGNAPD 82 A +W S GA+ + V L FN +Q ++V + G Y+++M IA YRA P Sbjct: 37 AASFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYRAAQQPA 96 Query: 83 ILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAYVPAIAGYYSTPKGMM-SFPFNS 141 ++++++VGT M+ + GA+ PV+++M G + D Y+PAI GYY+ +G S PFN Sbjct: 97 LVEIYDVGTLDMMLS-GAIVPVHQLMADHGYRVDWQDYLPAIRGYYTDAQGQFDSLPFNV 155 Query: 142 STTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKASGASCVYTTTWQSWVHLESFST 201 ST +++ N D +AG+ P TW+E A +++A+G +C + + W+ LE ST Sbjct: 156 STAVLYLNTDQLRQAGI--STLPSTWRELEQTARQLRAAGQTCPLVSDFNPWILLEQVST 213 Query: 202 WHNVELASKNNGFGGLDARLKMNSPLHVRHIENLANWAKQGYFTYAG--RKDEANAKFNA 259 +A +NG GL A + LH+R ++ L W +Q A R F Sbjct: 214 IEGAPIADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVEAAATRTGRHTLAFTT 273 Query: 260 GECAIITGSSSAYADIRKNAKFKFGVAPLPYYSDVPGAPQNTVIGGASLWVMSGKKADEY 319 GECA++ S+SA+ I ++ V PLP ++D G N+V GGASLWVM G Y Sbjct: 274 GECAMLFDSTSAWHAIARSGLPHVAVRPLPIHAD--GQRHNSVPGGASLWVMKGFDRQVY 331 Query: 320 KGVAKFFSYLSKPEVAAKWHQDTGYLPVTK-AAYELTRQSGFYDRNPGTDVAVKQMIVKT 378 VA F +YL +P+ + TGYLPVT+ A ++ Y P VA + Sbjct: 332 AAVAAFIAYLQQPQNQRLLARQTGYLPVTRQVAAQIMDDPDHY---PAAVVAGIHSLDAA 388 Query: 379 TEKSRGLRLGNYVQIRTVFDEELENVWTGKKTAKEALDSAVKRGDELLARFE 430 ++ G RLG + Q+R + E+++ +G++ +AL A +RGD LL RF Sbjct: 389 SQPGVGPRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKARQRGDALLQRFR 440 >gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 137 bits (344), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 111/423 (26%), Positives = 189/423 (44%), Gaps = 37/423 (8%) Query: 25 EITWWHSMT--GALGERVNALADDFNKSQSDYKVVPIYKGQYDESMSAAIAAYRAGNAPD 82 EI++++ + GA+ + ++++ DF K+ D KV IY G Y ES+ A+ A++ G P Sbjct: 29 EISFYYPVAVGGAVTKTIDSMVADFEKAHPDIKVKAIYAGTYQESIVKALTAFKGGTPPT 88 Query: 83 ILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAYVPAIAGYYSTPKGMMS------ 136 + + T+I + A+ P+ + A +K IAG+Y KG M Sbjct: 89 LAVLLSTDLFTLI-DENAILPIDSLASSAEDK-------KWIAGFY---KGFMENSQTEG 137 Query: 137 ----FPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKASGASCVYTTTWQS 192 PF ST +M+YNK +F +AGL+P+K P W E V A K+ A+ T W Sbjct: 138 KTWGIPFQRSTIVMYYNKALFKEAGLNPDKAPANWNEMVEAAKKLTKRDAAG-NVTQWGV 196 Query: 193 WVHLESFSTWHNVELASKNNGFGGLDARLK--MNSPLHVRHIENLANWAKQGYFTYAGRK 250 + F W + + N+ A K + P V+ +++ + + AG Sbjct: 197 KIPSTGFGYWMFQAMTASNDTLLMNSAGTKTYFDKPGAVQALQHWVDLTTKEKVMPAGSI 256 Query: 251 D--EANAKFNAGECAIITGSSSAYADIRKNAKFKFGVAPLPYYSDVPGAPQNTVIGGASL 308 + F + A++ ++ +IR NA F FGVA LP PG+P GG + Sbjct: 257 EWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLPGIKH-PGSP----TGGGNF 311 Query: 309 WVMSGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTKAAYELTRQSGFYDRNPGTD 368 +V + E + KF + ++P AA+W TGY+ + A++ + P D Sbjct: 312 YVFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYVAPRQDAWDTPEMKKYLQDVPAAD 371 Query: 369 VAVKQMIVKTTEKSRGLRLGNYVQIRTVFDEELENVWTGKKTAKEALDSAVKRGDELLAR 428 VA +QM E L + ++ ++ L+ + KT + AL A + + +L Sbjct: 372 VAREQMKYGVAE----LSTHDNQRVTKALNDNLQAALSDTKTPEAALKDAQREAERILRS 427 Query: 429 FER 431 + R Sbjct: 428 YGR 430 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 0.130 0.388 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: 1,374,467 Number of extensions: 58613 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 3 Length of query: 437 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 349 Effective length of database: 1,203,190 Effective search space: 419913310 Effective search space used: 419913310 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)