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= 0001.1336.p (231 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310827|ref|YP_003774919.1| amino acid ABC transporter perm... 456 e-130 gi|300313166|ref|YP_003777258.1| amino acid ABC transporter perm... 258 4e-70 gi|300313536|ref|YP_003777628.1| amino acid ABC transporter perm... 212 2e-56 gi|300309585|ref|YP_003773677.1| amino acid ABC transporter perm... 202 2e-53 gi|300313889|ref|YP_003777981.1| amino acid ABC transporter perm... 198 3e-52 >gi|300310827|ref|YP_003774919.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 231 Score = 456 bits (1174), Expect = e-130, Method: Compositional matrix adjust. Identities = 230/231 (99%), Positives = 231/231 (100%) Query: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSRPARLAVTSY 60 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGS+PARLAVTSY Sbjct: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSKPARLAVTSY 60 Query: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ Sbjct: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 Query: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL Sbjct: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 Query: 181 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRRRLGVARPRRM 231 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRRRLGVARPRRM Sbjct: 181 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRRRLGVARPRRM 231 >gi|300313166|ref|YP_003777258.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 258 bits (658), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 130/224 (58%), Positives = 170/224 (75%) Query: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSRPARLAVTSY 60 M Y F F +F + D+LL+GA LTI+LSALS++ G AVG AI R V +Y Sbjct: 1 MNYTFDFMSVFANWDRLLMGAWLTIQLSALSIVLGFAVGTLCAIAGKSRLALVRGLVLAY 60 Query: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 VE+IR+TP LVQ+F++FFGL SIG ++ A AA++A+TVN+GAY+TEI+RAG+ +IHP Q Sbjct: 61 VEIIRNTPLLVQVFLVFFGLASIGWKLSAETAAVIALTVNVGAYTTEIMRAGINSIHPGQ 120 Query: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 IEAA+ L M+R+ V HVVL PA+E+VYP+L SQF L+MLASSI S ISAEELTATANL+ Sbjct: 121 IEAAECLGMSRFHVYWHVVLLPAVERVYPSLTSQFILLMLASSITSQISAEELTATANLV 180 Query: 181 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRRRLG 224 +ETFRSFE+Y V+ V Y++L+ LFR AFW I + F R+R+LG Sbjct: 181 QSETFRSFEVYAVIAVAYLVLSFLFRGAFWAISQIAFVRKRKLG 224 >gi|300313536|ref|YP_003777628.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 223 Score = 212 bits (540), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 108/221 (48%), Positives = 148/221 (66%) Query: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSRPARLAVTSY 60 M Y F F F + D ++ G TI L A+ + G+AVGIFGA G + V+ Y Sbjct: 1 MAYQFDFLSTFDYTDVIVKGVATTIELIAIGGVLGVAVGIFGAWARTQGPGWLKPVVSGY 60 Query: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 VE+IR+TPFLVQLF IFFGLPS+ + + AA+VAM +NLGAYSTEI+RAG+ AI Q Sbjct: 61 VEIIRNTPFLVQLFFIFFGLPSLDIHISEITAAIVAMVINLGAYSTEIIRAGVQAIPRGQ 120 Query: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 IEAAQ+L+M+R Q+ RH++L PAL+K++PAL+SQ ++ML S++ S I+ EEL+ AN + Sbjct: 121 IEAAQSLSMSRMQIFRHIILRPALQKIWPALSSQVVIVMLGSAVCSQIAVEELSFAANFI 180 Query: 181 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRR 221 FR+FE Y+V +Y++LA+L R LIG RR Sbjct: 181 QGRNFRAFEAYIVATAIYLVLAILLRQVLRLIGHYFITARR 221 >gi|300309585|ref|YP_003773677.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 227 Score = 202 bits (514), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 112/226 (49%), Positives = 154/226 (68%), Gaps = 4/226 (1%) Query: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSRPA--RLAVT 58 M Y+F FA + H LL GA T++LS L+ + G +G A+ GSR R AV+ Sbjct: 1 MHYEFDFASVAAHWPLLLQGAWTTVQLSFLATLLGFVLGAACAVA--RGSRHGWLRAAVS 58 Query: 59 SYVELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHP 118 YVELIR+TP L+Q + + FGL S+GV + A +A+ +N+GAYS EIVRAG+ +IH Sbjct: 59 GYVELIRNTPLLIQCYFLIFGLSSVGVTMPIMAGATLALVINIGAYSCEIVRAGLESIHH 118 Query: 119 SQIEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATAN 178 Q+EAA L ++ QV HVVL PA+E+V+PAL SQF LMMLASSI+S++ AEEL AN Sbjct: 119 GQLEAASCLGLSPAQVFWHVVLLPAVERVWPALTSQFVLMMLASSILSSVGAEELLGVAN 178 Query: 179 LLDAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFKRRRRLG 224 + ++TFR+FE++L++ Y+ LA L R FWL+G +VF RRR+LG Sbjct: 179 RVQSDTFRNFEVFLLLWAAYLALACLMRAGFWLLGQLVFTRRRKLG 224 >gi|300313889|ref|YP_003777981.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 277 Score = 198 bits (503), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 100/218 (45%), Positives = 153/218 (70%) Query: 1 MQYDFQFAFIFQHLDQLLVGALLTIRLSALSMICGLAVGIFGAIISIHGSRPARLAVTSY 60 M + F+ + + L GA LT++++ L++I G+A+GIF A R ++Y Sbjct: 1 MNFSLDFSPLAPYWPVFLHGAWLTLKMTTLAVIVGVAIGIFVAFAKNSPHRWLARGCSAY 60 Query: 61 VELIRSTPFLVQLFIIFFGLPSIGVQVDANIAALVAMTVNLGAYSTEIVRAGMMAIHPSQ 120 +E++R+TPFLVQ+F+++FGL S+G+++ AA++AM +N+ AY+ EI+RAG+ ++ Q Sbjct: 61 IEVVRNTPFLVQIFLLYFGLASLGIRMPTFAAAVLAMIINIAAYAAEIIRAGLDSVPRGQ 120 Query: 121 IEAAQALAMTRWQVIRHVVLTPALEKVYPALASQFTLMMLASSIVSAISAEELTATANLL 180 IEAAQ L ++ W++ HV+L PA+E+VYPAL SQF LMM AS++ S ISAEELTA AN + Sbjct: 121 IEAAQCLGLSVWRIRWHVMLQPAIERVYPALTSQFLLMMQASAMASQISAEELTAIANTV 180 Query: 181 DAETFRSFEIYLVVMVLYILLALLFRLAFWLIGLVVFK 218 ++TFRS E YLVV LY++LA+L +L + IG +FK Sbjct: 181 QSDTFRSLETYLVVAALYLVLAILVKLVAYAIGETIFK 218 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 0.333 0.141 0.401 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: 492,483 Number of extensions: 17255 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 159 Number of HSP's successfully gapped: 21 Length of query: 231 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 149 Effective length of database: 1,231,600 Effective search space: 183508400 Effective search space used: 183508400 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: 39 (21.5 bits) S2: 129 (54.3 bits)