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= 0214.0030.p (263 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 236 2e-63 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 79 3e-16 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 75 5e-15 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 60 2e-10 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 58 9e-10 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 236 bits (602), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 113/135 (83%), Positives = 126/135 (93%) Query: 1 MLIYLLRRLAIALCVAVTVSIVSFSLLHMSGDLATAIAGPEASASQVEAIRVQFGLDRPM 60 MLIY+LRRLAIALCVAVTVS+VSF+LLHMSGDLA +IAGPEA+A+QVE++R QFGLDRPM Sbjct: 1 MLIYILRRLAIALCVAVTVSVVSFTLLHMSGDLAVSIAGPEATAAQVESVRTQFGLDRPM 60 Query: 61 MSQYVDWLGNAMHLDFGKSFYFQGPVMEMVAERLPITMKLGGIALLLAVTVAIPLGVLAA 120 +QY+DWLG A+ LDFGKSFYFQGPVMEM+AERLPIT KLGG ALLLAV AIPLGVLAA Sbjct: 61 ATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLAA 120 Query: 121 IYRDTWLDRAALVIA 135 IYRDTWLDRAAL+IA Sbjct: 121 IYRDTWLDRAALLIA 135 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 79.3 bits (194), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 62/214 (28%), Positives = 101/214 (47%), Gaps = 13/214 (6%) Query: 29 MSGDLATAIAGPEASASQVEAIRVQFGLDRPMMSQYVDWLGNAMHLDFGKSFYFQGPVME 88 + GD A G A+ V A+R+Q+GLD P +Y WLGN + + G S PV + Sbjct: 34 LPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQ 93 Query: 89 MVAERLPITMKLGGIALLLAVTVAIPLGVLAAIYRDTWLDRAALVIAXALIEVQ-----T 143 M+ RLP ++ L + L++V +A+ LG+ +A+YR ++ DRA V A +++ V T Sbjct: 94 MIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVAT 153 Query: 144 LAFVDALGDVRGLLVVGHQHGAALVVDTVVGIVVADALDGLTGDVDVVDVGARGDFTGEH 203 +A + +R L + H AA T+ + A A+ LT +V R Sbjct: 154 VAVMIFAVKLRWLSALSHAGDAA----TLGAFIKAYAMPVLTLCCVIVAQMTRMTRAAVI 209 Query: 204 DQTCVAQG----FGGDAGKRVLFKDGVQNRIGNL 233 DQ + G R++ + + N IG + Sbjct: 210 DQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPI 243 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 75.1 bits (183), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 38/109 (34%), Positives = 62/109 (56%) Query: 29 MSGDLATAIAGPEASASQVEAIRVQFGLDRPMMSQYVDWLGNAMHLDFGKSFYFQGPVME 88 + GD A AGPEA V +R GLD+P+ Q+V++ NA DFG S + PV E Sbjct: 30 LPGDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPVSE 89 Query: 89 MVAERLPITMKLGGIALLLAVTVAIPLGVLAAIYRDTWLDRAALVIAXA 137 ++ R T+ L +A++ AV + +G+ +A++R+ W DR + +A + Sbjct: 90 EISARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVS 138 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 59.7 bits (143), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 42/120 (35%), Positives = 72/120 (60%), Gaps = 4/120 (3%) Query: 7 RRLAIALCVAVTVSIVSFSLLHMSGDLATAIAGPEASASQVEAIRV--QFGLDRPMMSQY 64 R + AL V + ++++ F LHM G+ + G + QV+ +R+ + GLD+P+ QY Sbjct: 7 RSVVQALMVVLLMTVIVFFGLHMIGNPVDILIGQDVD--QVDRLRIIQELGLDQPVWRQY 64 Query: 65 VDWLGNAMHLDFGKSFYFQGPVMEMVAERLPITMKLGGIALLLAVTVAIPLGVLAAIYRD 124 + +L A+H + G SF + P + ++ +RLP T++L ALLLA+ V +PLG+ A + D Sbjct: 65 LAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAGMKPD 124 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 57.8 bits (138), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 41/124 (33%), Positives = 62/124 (50%), Gaps = 5/124 (4%) Query: 20 SIVSFSLLHMSGDLATAIAGPEASASQVE-----AIRVQFGLDRPMMSQYVDWLGNAMHL 74 ++ F + GD+A IA V A+R + GLDRP +W +HL Sbjct: 35 TLCFFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHL 94 Query: 75 DFGKSFYFQGPVMEMVAERLPITMKLGGIALLLAVTVAIPLGVLAAIYRDTWLDRAALVI 134 D G S PV+ +A +L T++L +A+ L++ V LGVLA ++ WLDRA L + Sbjct: 95 DLGVSQVSSQPVLAEIAHQLGPTLRLSLLAMALSLLVGPTLGVLAGLHPGRWLDRATLAL 154 Query: 135 AXAL 138 + L Sbjct: 155 SVGL 158 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 0.327 0.143 0.420 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: 660,197 Number of extensions: 23748 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 6 Length of query: 263 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 180 Effective length of database: 1,226,865 Effective search space: 220835700 Effective search space used: 220835700 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 (21.7 bits) S2: 129 (54.3 bits)