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= 0004.0077.p (237 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313536|ref|YP_003777628.1| amino acid ABC transporter perm... 340 6e-95 gi|300310827|ref|YP_003774919.1| amino acid ABC transporter perm... 208 4e-55 gi|300313889|ref|YP_003777981.1| amino acid ABC transporter perm... 199 1e-52 gi|300313166|ref|YP_003777258.1| amino acid ABC transporter perm... 185 2e-48 gi|300309585|ref|YP_003773677.1| amino acid ABC transporter perm... 181 6e-47 >gi|300313536|ref|YP_003777628.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 223 Score = 340 bits (872), Expect = 6e-95, Method: Compositional matrix adjust. Identities = 164/220 (74%), Positives = 190/220 (86%) Query: 1 MIYQFDFSSILEYAKVLERGVLMTIRLIVIGGVAGVALGIFGAWARTQGPRWLKPTISAY 60 M YQFDF S +Y V+ +GV TI LI IGGV GVA+GIFGAWARTQGP WLKP +S Y Sbjct: 1 MAYQFDFLSTFDYTDVIVKGVATTIELIAIGGVLGVAVGIFGAWARTQGPGWLKPVVSGY 60 Query: 61 VELIRNTPFLVQLFFIFFGLPSIGVTITELQAAIIAMVINLGAYSTEIIRAGVSAIARGQ 120 VE+IRNTPFLVQLFFIFFGLPS+ + I+E+ AAI+AMVINLGAYSTEIIRAGV AI RGQ Sbjct: 61 VEIIRNTPFLVQLFFIFFGLPSLDIHISEITAAIVAMVINLGAYSTEIIRAGVQAIPRGQ 120 Query: 121 IEAALSLSMTRLQVFRYVILRPALQKVWPALSSQIVIVMLGSSICSQISVEELSFAANFI 180 IEAA SLSM+R+Q+FR++ILRPALQK+WPALSSQ+VIVMLGS++CSQI+VEELSFAANFI Sbjct: 121 IEAAQSLSMSRMQIFRHIILRPALQKIWPALSSQVVIVMLGSAVCSQIAVEELSFAANFI 180 Query: 181 QSRNFRAFEAYLVTTLIYLIMAILLRQILHYIGRRFVFHR 220 Q RNFRAFEAY+V T IYL++AILLRQ+L IG F+ R Sbjct: 181 QGRNFRAFEAYIVATAIYLVLAILLRQVLRLIGHYFITAR 220 >gi|300310827|ref|YP_003774919.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 231 Score = 208 bits (529), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 107/199 (53%), Positives = 143/199 (71%) Query: 1 MIYQFDFSSILEYAKVLERGVLMTIRLIVIGGVAGVALGIFGAWARTQGPRWLKPTISAY 60 M Y F F+ I ++ L G L+TIRL + + G+A+GIFGA G + + +++Y Sbjct: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSKPARLAVTSY 60 Query: 61 VELIRNTPFLVQLFFIFFGLPSIGVTITELQAAIIAMVINLGAYSTEIIRAGVSAIARGQ 120 VELIR+TPFLVQLF IFFGLPSIGV + AA++AM +NLGAYSTEI+RAG+ AI Q Sbjct: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 Query: 121 IEAALSLSMTRLQVFRYVILRPALQKVWPALSSQIVIVMLGSSICSQISVEELSFAANFI 180 IEAA +L+MTR QV R+V+L PAL+KV+PAL+SQ ++ML SSI S IS EEL+ AN + Sbjct: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 Query: 181 QSRNFRAFEAYLVTTLIYL 199 + FR+FE YLV ++Y+ Sbjct: 181 DAETFRSFEIYLVVMVLYI 199 >gi|300313889|ref|YP_003777981.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 277 Score = 199 bits (507), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 95/214 (44%), Positives = 150/214 (70%) Query: 1 MIYQFDFSSILEYAKVLERGVLMTIRLIVIGGVAGVALGIFGAWARTQGPRWLKPTISAY 60 M + DFS + Y V G +T+++ + + GVA+GIF A+A+ RWL SAY Sbjct: 1 MNFSLDFSPLAPYWPVFLHGAWLTLKMTTLAVIVGVAIGIFVAFAKNSPHRWLARGCSAY 60 Query: 61 VELIRNTPFLVQLFFIFFGLPSIGVTITELQAAIIAMVINLGAYSTEIIRAGVSAIARGQ 120 +E++RNTPFLVQ+F ++FGL S+G+ + AA++AM+IN+ AY+ EIIRAG+ ++ RGQ Sbjct: 61 IEVVRNTPFLVQIFLLYFGLASLGIRMPTFAAAVLAMIINIAAYAAEIIRAGLDSVPRGQ 120 Query: 121 IEAALSLSMTRLQVFRYVILRPALQKVWPALSSQIVIVMLGSSICSQISVEELSFAANFI 180 IEAA L ++ ++ +V+L+PA+++V+PAL+SQ +++M S++ SQIS EEL+ AN + Sbjct: 121 IEAAQCLGLSVWRIRWHVMLQPAIERVYPALTSQFLLMMQASAMASQISAEELTAIANTV 180 Query: 181 QSRNFRAFEAYLVTTLIYLIMAILLRQILHYIGR 214 QS FR+ E YLV +YL++AIL++ + + IG Sbjct: 181 QSDTFRSLETYLVVAALYLVLAILVKLVAYAIGE 214 >gi|300313166|ref|YP_003777258.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 185 bits (470), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 97/206 (47%), Positives = 139/206 (67%) Query: 1 MIYQFDFSSILEYAKVLERGVLMTIRLIVIGGVAGVALGIFGAWARTQGPRWLKPTISAY 60 M Y FDF S+ L G +TI+L + V G A+G A A ++ + AY Sbjct: 1 MNYTFDFMSVFANWDRLLMGAWLTIQLSALSIVLGFAVGTLCAIAGKSRLALVRGLVLAY 60 Query: 61 VELIRNTPFLVQLFFIFFGLPSIGVTITELQAAIIAMVINLGAYSTEIIRAGVSAIARGQ 120 VE+IRNTP LVQ+F +FFGL SIG ++ AA+IA+ +N+GAY+TEI+RAG+++I GQ Sbjct: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTVNVGAYTTEIMRAGINSIHPGQ 120 Query: 121 IEAALSLSMTRLQVFRYVILRPALQKVWPALSSQIVIVMLGSSICSQISVEELSFAANFI 180 IEAA L M+R V+ +V+L PA+++V+P+L+SQ +++ML SSI SQIS EEL+ AN + Sbjct: 121 IEAAECLGMSRFHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 Query: 181 QSRNFRAFEAYLVTTLIYLIMAILLR 206 QS FR+FE Y V + YL+++ L R Sbjct: 181 QSETFRSFEVYAVIAVAYLVLSFLFR 206 >gi|300309585|ref|YP_003773677.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 181 bits (458), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 91/191 (47%), Positives = 129/191 (67%) Query: 1 MIYQFDFSSILEYAKVLERGVLMTIRLIVIGGVAGVALGIFGAWARTQGPRWLKPTISAY 60 M Y+FDF+S+ + +L +G T++L + + G LG A AR WL+ +S Y Sbjct: 1 MHYEFDFASVAAHWPLLLQGAWTTVQLSFLATLLGFVLGAACAVARGSRHGWLRAAVSGY 60 Query: 61 VELIRNTPFLVQLFFIFFGLPSIGVTITELQAAIIAMVINLGAYSTEIIRAGVSAIARGQ 120 VELIRNTP L+Q +F+ FGL S+GVT+ + A +A+VIN+GAYS EI+RAG+ +I GQ Sbjct: 61 VELIRNTPLLIQCYFLIFGLSSVGVTMPIMAGATLALVINIGAYSCEIVRAGLESIHHGQ 120 Query: 121 IEAALSLSMTRLQVFRYVILRPALQKVWPALSSQIVIVMLGSSICSQISVEELSFAANFI 180 +EAA L ++ QVF +V+L PA+++VWPAL+SQ V++ML SSI S + EEL AN + Sbjct: 121 LEAASCLGLSPAQVFWHVVLLPAVERVWPALTSQFVLMMLASSILSSVGAEELLGVANRV 180 Query: 181 QSRNFRAFEAY 191 QS FR FE + Sbjct: 181 QSDTFRNFEVF 191 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 0.331 0.142 0.410 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: 566,806 Number of extensions: 18522 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 98 Number of HSP's successfully gapped: 19 Length of query: 237 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 155 Effective length of database: 1,231,600 Effective search space: 190898000 Effective search space used: 190898000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 129 (54.3 bits)