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= 0029.0068.p (431 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... 753 0.0 gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transp... 235 5e-63 gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasm... 75 1e-14 >gi|300311925|ref|YP_003776017.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 452 Score = 753 bits (1944), Expect = 0.0, Method: Compositional matrix adjust. Identities = 370/422 (87%), Positives = 390/422 (92%), Gaps = 2/422 (0%) Query: 8 AAARAQSASFEFWSSHSGPMAQAVRQLCAGFNAAQKQHQVRCVTPGSYEQTMQKTIAAYR 67 A RA +ASFEFWSSH+G MAQAVRQLCAGFNAAQ+QHQVRCV PG+YEQTMQKTIA YR Sbjct: 31 AIPRAPAASFEFWSSHAGAMAQAVRQLCAGFNAAQQQHQVRCVVPGTYEQTMQKTIATYR 90 Query: 68 AAQQPALVEIYDVGTLDMMLSGAIVPVHQLMAAHGYHVDWQDYLPAIRSYYTDAKGQFDS 127 AAQQPALVEIYDVGTLDMMLSGAIVPVHQLMA HGY VDWQDYLPAIR YYTDA+GQFDS Sbjct: 91 AAQQPALVEIYDVGTLDMMLSGAIVPVHQLMADHGYRVDWQDYLPAIRGYYTDAQGQFDS 150 Query: 128 LPFNVSTAVLYLNTSRLQQAGINTLPATWSELEQAARQLRAAGQTCPLVSDFNPWILLEQ 187 LPFNVSTAVLYLNT +L+QAGI+TLP+TW ELEQ ARQLRAAGQTCPLVSDFNPWILLEQ Sbjct: 151 LPFNVSTAVLYLNTDQLRQAGISTLPSTWRELEQTARQLRAAGQTCPLVSDFNPWILLEQ 210 Query: 188 VSTIEGAPLADQDNGHRSLATHYLFDQGLHLRFMQQVQRWHQQHLLVEAAATRTGRHTLA 247 VSTIEGAP+AD DNGH+ LA HYLFDQGLHLRFMQQ+QRWHQQHLLVEAAATRTGRHTLA Sbjct: 211 VSTIEGAPIADHDNGHQGLAAHYLFDQGLHLRFMQQLQRWHQQHLLVEAAATRTGRHTLA 270 Query: 248 FTTGECAMLLDSTSAWHAVARSGLPGLAVLPLPVHAGSARHNSVPGGASLWVMKGFDDQV 307 FTTGECAML DSTSAWHA+ARSGLP +AV PLP+HA RHNSVPGGASLWVMKGFD QV Sbjct: 271 FTTGECAMLFDSTSAWHAIARSGLPHVAVRPLPIHADGQRHNSVPGGASLWVMKGFDRQV 330 Query: 308 YAAVAAFIAYLQQPQNQRLLVRQTGYLPVSRQVAAQIMDDAGHYPASVVAGIHSLDANAG 367 YAAVAAFIAYLQQPQNQRLL RQTGYLPV+RQVAAQIMDD HYPA+VVAGIHSLDA A Sbjct: 331 YAAVAAFIAYLQQPQNQRLLARQTGYLPVTRQVAAQIMDDPDHYPAAVVAGIHSLDA-AS 389 Query: 368 QPGVGPRLGFFPQLRLAWTEQVQTALAGQQDMASALAKARRRGDALLQRFRLTYAPADSP 427 QPGVGPRLGFFPQLRLAWTEQVQ AL+GQQDMA AL+KAR+RGDALLQRFRLTYA D P Sbjct: 390 QPGVGPRLGFFPQLRLAWTEQVQMALSGQQDMAQALSKARQRGDALLQRFRLTYAGPD-P 448 Query: 428 AP 429 AP Sbjct: 449 AP 450 >gi|300313089|ref|YP_003777181.1| glycerol-3-phosphate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 235 bits (600), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 134/424 (31%), Positives = 218/424 (51%), Gaps = 13/424 (3%) Query: 3 LLLVLAAARAQSASFEFWSSHSGPMAQAVRQLCAGFNAAQKQHQVRCVTPGSYEQTMQKT 62 +L + ++ + + +W S +G + + V L FN Q +++ V G+Y+++M Sbjct: 12 VLATITSSAFAATAITWWHSMTGALGERVNALADDFNKTQGDYKIVPVYKGTYDESMSAA 71 Query: 63 IAAYRAAQQPALVEIYDVGTLDMMLS-GAIVPVHQLMAAHGYHVDWQDYLPAIRSYYTDA 121 IAAYRA PA++++++VGT M+ + GA+ PV+++M G D Y+PA+ YY+ Sbjct: 72 IAAYRAGNAPAILQVFEVGTATMIYAKGAVKPVYEVMHQAGEKFDQNAYVPAVAGYYSTP 131 Query: 122 KGQFDSLPFNVSTAVLYLNTSRLQQAGIN--TLPATWSELEQAARQLRAAGQTCPLVSDF 179 KG S PFN ST +++ N +AG++ P TW E A +++A+G C + + Sbjct: 132 KGMM-SFPFNSSTTIMFYNKDMFAKAGLDPEKPPVTWQEFVGMAAKIKASGAACAYTTTW 190 Query: 180 NPWILLEQVSTIEGAPLADQDNGHRSLATHYLFDQGLHLRFMQQVQRWHQQHLLVEAAAT 239 W+ LE ST LA ++NG L + LH+R ++ + W +Q A Sbjct: 191 QSWVHLESFSTWHNVELATKNNGFGGLDARLKMNSPLHVRHIENLSNWAKQGYFTYAG-- 248 Query: 240 RTGRHTLAFTTGECAMLLDSTSAWHAVARSG--LPGLAVLPLPVHAGSARHNSVPGGASL 297 R F GECA++ S+SA+ + ++ G+A LP A N+V GGASL Sbjct: 249 RKDEANAKFNAGECAIITGSSSAYADIRKNAKFKFGVATLPYYNDVQGAPQNTVIGGASL 308 Query: 298 WVMKGFDDQVYAAVAAFIAYLQQPQNQRLLVRQTGYLPVSRQVAAQIMDDAGHY---PAS 354 WVM G Y VA F +YL +P+ + TGYLPV++ A ++ +G Y P + Sbjct: 309 WVMNGKKADEYKGVAKFFSYLSKPEVAAKWHQDTGYLPVTK-AAYELTKSSGFYERNPGT 367 Query: 355 VVAGIHSLDANAGQPGVGPRLGFFPQLRLAWTEQVQTALAGQQDMASALAKARRRGDALL 414 VA + + + G RLG + Q+R + E+++ G++ AL A +RGD LL Sbjct: 368 DVA-VKQMIVKTTEKSRGLRLGNYAQVRTVFDEELENVWTGKKSAKDALDSAVKRGDELL 426 Query: 415 QRFR 418 RF Sbjct: 427 ARFE 430 >gi|300312387|ref|YP_003776479.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 430 Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 97/436 (22%), Positives = 174/436 (39%), Gaps = 58/436 (13%) Query: 9 AARAQSASFEFWSSHSGPMAQAVRQLCAGFNAAQKQHQVRCVTPGSYEQTMQKTIAAYRA 68 AA SF + + G + + + + A F A +V+ + G+Y++++ K + A++ Sbjct: 24 AANPVEISFYYPVAVGGAVTKTIDSMVADFEKAHPDIKVKAIYAGTYQESIVKALTAFKG 83 Query: 69 AQQPALVEIYDVGTLDMMLSGAIVPVHQLMAAHGYHVDWQDYLPAIRSYY------TDAK 122 P L + ++ AI+P+ L A+ W I +Y + + Sbjct: 84 GTPPTLAVLLSTDLFTLIDENAILPIDSL-ASSAEDKKW------IAGFYKGFMENSQTE 136 Query: 123 GQFDSLPFNVSTAVLYLNTSRLQQAGIN--TLPATWSELEQAARQLR---AAGQTCPL-- 175 G+ +PF ST V+Y N + ++AG+N PA W+E+ +AA++L AAG Sbjct: 137 GKTWGIPFQRSTIVMYYNKALFKEAGLNPDKAPANWNEMVEAAKKLTKRDAAGNVTQWGV 196 Query: 176 ---VSDFNPWILLEQVSTIEGAPLADQDNGHRSLATHYLFDQGLHLRFMQQVQRWHQQHL 232 + F W+ Q T L S T FD+ ++ +Q + Sbjct: 197 KIPSTGFGYWMF--QAMTASNDTLL-----MNSAGTKTYFDKPGAVQALQHWVDLTTKEK 249 Query: 233 LVEAAATRTGRHTLAFTTGECAMLLDSTSAWHAV-ARSGLP-GLAVLPLPVHAGSARHNS 290 ++ A + G F + AM+ +T + + P G+A+LP H GS Sbjct: 250 VMPAGSIEWGTTPKDFLEQKAAMVWTTTGNLTNIRTNASFPFGVAMLPGIKHPGSPT--- 306 Query: 291 VPGGASLWVMKGFDDQVYAAVAAFIAYLQQPQNQRLLVRQTGYLPVSRQVAAQIMDDAGH 350 GG + +V A FI + +P TGY+ RQ A + + Sbjct: 307 --GGGNFYVFNKTSPAEQQAAMKFIRFATEPARAAQWSIATGYV-APRQDAWDTPEMKKY 363 Query: 351 ---YPASVVA------GIHSLDANAGQPGVGPRLGFFPQLRLAWTEQVQTALAGQQDMAS 401 PA+ VA G+ L + Q ++ A + +Q AL+ + + Sbjct: 364 LQDVPAADVAREQMKYGVAELSTHDNQ-----------RVTKALNDNLQAALSDTKTPEA 412 Query: 402 ALAKARRRGDALLQRF 417 AL A+R + +L+ + Sbjct: 413 ALKDAQREAERILRSY 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 0.321 0.131 0.398 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: 1,348,754 Number of extensions: 55825 Number of successful extensions: 197 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 188 Number of HSP's successfully gapped: 3 Length of query: 431 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 343 Effective length of database: 1,203,190 Effective search space: 412694170 Effective search space used: 412694170 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 (21.9 bits) S2: 132 (55.5 bits)