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= 0001.3778.p (227 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313166|ref|YP_003777258.1| amino acid ABC transporter perm... 430 e-122 gi|300309585|ref|YP_003773677.1| amino acid ABC transporter perm... 258 3e-70 gi|300310827|ref|YP_003774919.1| amino acid ABC transporter perm... 239 2e-64 gi|300313889|ref|YP_003777981.1| amino acid ABC transporter perm... 226 1e-60 gi|300313536|ref|YP_003777628.1| amino acid ABC transporter perm... 198 3e-52 >gi|300313166|ref|YP_003777258.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 430 bits (1105), Expect = e-122, Method: Compositional matrix adjust. Identities = 213/227 (93%), Positives = 220/227 (96%) Query: 1 MNYTFDFMSVFAQWDRLLLGAWLTIQLSALSIVLGFVLGTLCAMAGKSHLEVLRGLVKAY 60 MNYTFDFMSVFA WDRLL+GAWLTIQLSALSIVLGF +GTLCA+AGKS L ++RGLV AY Sbjct: 1 MNYTFDFMSVFANWDRLLMGAWLTIQLSALSIVLGFAVGTLCAIAGKSRLALVRGLVLAY 60 Query: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTLNVGAYTTEIMRAGINSIHPGQ 120 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALT+NVGAYTTEIMRAGINSIHPGQ Sbjct: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTVNVGAYTTEIMRAGINSIHPGQ 120 Query: 121 IEAAECLGMSRLHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 IEAAECLGMSR HVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV Sbjct: 121 IEAAECLGMSRFHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 Query: 181 QSETFRSFEVYAVIAVAYLVLSFLFRGAFWLISQMAFVRKRKLGTNL 227 QSETFRSFEVYAVIAVAYLVLSFLFRGAFW ISQ+AFVRKRKLGTNL Sbjct: 181 QSETFRSFEVYAVIAVAYLVLSFLFRGAFWAISQIAFVRKRKLGTNL 227 >gi|300309585|ref|YP_003773677.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 258 bits (659), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 132/227 (58%), Positives = 167/227 (73%) Query: 1 MNYTFDFMSVFAQWDRLLLGAWLTIQLSALSIVLGFVLGTLCAMAGKSHLEVLRGLVKAY 60 M+Y FDF SV A W LL GAW T+QLS L+ +LGFVLG CA+A S LR V Y Sbjct: 1 MHYEFDFASVAAHWPLLLQGAWTTVQLSFLATLLGFVLGAACAVARGSRHGWLRAAVSGY 60 Query: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTLNVGAYTTEIMRAGINSIHPGQ 120 VE+IRNTPLL+Q + + FGL+S+G + A +AL +N+GAY+ EI+RAG+ SIH GQ Sbjct: 61 VELIRNTPLLIQCYFLIFGLSSVGVTMPIMAGATLALVINIGAYSCEIVRAGLESIHHGQ 120 Query: 121 IEAAECLGMSRLHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 +EAA CLG+S V+WHVVLLPAVERV+P+LTSQF+L+MLASSI S + AEEL AN V Sbjct: 121 LEAASCLGLSPAQVFWHVVLLPAVERVWPALTSQFVLMMLASSILSSVGAEELLGVANRV 180 Query: 181 QSETFRSFEVYAVIAVAYLVLSFLFRGAFWLISQMAFVRKRKLGTNL 227 QS+TFR+FEV+ ++ AYL L+ L R FWL+ Q+ F R+RKLGT L Sbjct: 181 QSDTFRNFEVFLLLWAAYLALACLMRAGFWLLGQLVFTRRRKLGTPL 227 >gi|300310827|ref|YP_003774919.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 231 Score = 239 bits (609), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 127/224 (56%), Positives = 169/224 (75%) Query: 1 MNYTFDFMSVFAQWDRLLLGAWLTIQLSALSIVLGFVLGTLCAMAGKSHLEVLRGLVKAY 60 M Y F F +F D+LL+GA LTI+LSALS++ G +G A+ + R V +Y Sbjct: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSKPARLAVTSY 60 Query: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTLNVGAYTTEIMRAGINSIHPGQ 120 VE+IR+TP LVQ+F++FFGL SIG ++ A AA++A+T+N+GAY+TEI+RAG+ +IHP Q Sbjct: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 Query: 121 IEAAECLGMSRLHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 IEAA+ L M+R V HVVL PA+E+VYP+L SQF L+MLASSI S ISAEELTATANL+ Sbjct: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 Query: 181 QSETFRSFEVYAVIAVAYLVLSFLFRGAFWLISQMAFVRKRKLG 224 +ETFRSFE+Y V+ V Y++L+ LFR AFWLI + F R+R+LG Sbjct: 181 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRRRLG 224 >gi|300313889|ref|YP_003777981.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 277 Score = 226 bits (575), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 111/218 (50%), Positives = 157/218 (72%), Gaps = 2/218 (0%) Query: 1 MNYTFDFMSVFAQWDRLLLGAWLTIQLSALSIVLGFVLGTLCAMAGKS-HLEVLRGLVKA 59 MN++ DF + W L GAWLT++++ L++++G +G A A S H + RG A Sbjct: 1 MNFSLDFSPLAPYWPVFLHGAWLTLKMTTLAVIVGVAIGIFVAFAKNSPHRWLARG-CSA 59 Query: 60 YVEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTLNVGAYTTEIMRAGINSIHPG 119 Y+E++RNTP LVQ+FL++FGLAS+G ++ AAV+A+ +N+ AY EI+RAG++S+ G Sbjct: 60 YIEVVRNTPFLVQIFLLYFGLASLGIRMPTFAAAVLAMIINIAAYAAEIIRAGLDSVPRG 119 Query: 120 QIEAAECLGMSRLHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANL 179 QIEAA+CLG+S + WHV+L PA+ERVYP+LTSQF+L+M AS++ SQISAEELTA AN Sbjct: 120 QIEAAQCLGLSVWRIRWHVMLQPAIERVYPALTSQFLLMMQASAMASQISAEELTAIANT 179 Query: 180 VQSETFRSFEVYAVIAVAYLVLSFLFRGAFWLISQMAF 217 VQS+TFRS E Y V+A YLVL+ L + + I + F Sbjct: 180 VQSDTFRSLETYLVVAALYLVLAILVKLVAYAIGETIF 217 >gi|300313536|ref|YP_003777628.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 223 Score = 198 bits (503), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 101/222 (45%), Positives = 147/222 (66%), Gaps = 1/222 (0%) Query: 1 MNYTFDFMSVFAQWDRLLLGAWLTIQLSALSIVLGFVLGTLCAMAGKSHLEVLRGLVKAY 60 M Y FDF+S F D ++ G TI+L A+ VLG +G A A L+ +V Y Sbjct: 1 MAYQFDFLSTFDYTDVIVKGVATTIELIAIGGVLGVAVGIFGAWARTQGPGWLKPVVSGY 60 Query: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTLNVGAYTTEIMRAGINSIHPGQ 120 VEIIRNTP LVQ+F +FFGL S+ +S TAA++A+ +N+GAY+TEI+RAG+ +I GQ Sbjct: 61 VEIIRNTPFLVQLFFIFFGLPSLDIHISEITAAIVAMVINLGAYSTEIIRAGVQAIPRGQ 120 Query: 121 IEAAECLGMSRLHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 IEAA+ L MSR+ ++ H++L PA+++++P+L+SQ +++ML S++ SQI+ EEL+ AN + Sbjct: 121 IEAAQSLSMSRMQIFRHIILRPALQKIWPALSSQVVIVMLGSAVCSQIAVEELSFAANFI 180 Query: 181 QSETFRSFEVYAVIAVAYLVLSFLFRGAFWLISQMAFVRKRK 222 Q FR+FE Y V YLVL+ L R LI F+ R+ Sbjct: 181 QGRNFRAFEAYIVATAIYLVLAILLRQVLRLIGHY-FITARR 221 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 0.328 0.137 0.404 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: 537,823 Number of extensions: 16788 Number of successful extensions: 142 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 134 Number of HSP's successfully gapped: 19 Length of query: 227 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 145 Effective length of database: 1,231,600 Effective search space: 178582000 Effective search space used: 178582000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 129 (54.3 bits)