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= 0020.0415.p (259 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 404 e-114 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 92 4e-20 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 88 8e-19 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 67 1e-12 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 58 9e-10 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 404 bits (1038), Expect = e-114, Method: Compositional matrix adjust. Identities = 206/207 (99%), Positives = 206/207 (99%) Query: 1 MNGMVLRLIVRRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYG 60 MNGMVLRLI RRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYG Sbjct: 1 MNGMVLRLIARRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYG 60 Query: 61 LDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFL 120 LDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFL Sbjct: 61 LDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFL 120 Query: 121 GIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGA 180 GIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGA Sbjct: 121 GIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGA 180 Query: 181 FIKAYAMPVLTLCCVIVAQMTRMTRAA 207 FIKAYAMPVLTLCCVIVAQMTRMTRAA Sbjct: 181 FIKAYAMPVLTLCCVIVAQMTRMTRAA 207 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 92.0 bits (227), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 63/176 (35%), Positives = 93/176 (52%), Gaps = 8/176 (4%) Query: 32 NLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPV 91 +LLPGD A+ A G A +TVA +R GLD P P ++ ++ N G+ G S+ PV Sbjct: 28 HLLPGDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPV 87 Query: 92 AQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLV 151 ++ I R +L L V + +V L +GI SA++R + DR AVS +S P F + Sbjct: 88 SEEISARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSL 147 Query: 152 ATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVIVAQMTRMTRAA 207 + V +F+VKL WL + GD L Y +P +TL + A M R TR++ Sbjct: 148 GILLVQVFSVKLGWLPTV---GDDTWL-----HYILPSITLGAAVAAVMARFTRSS 195 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 87.8 bits (216), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 65/198 (32%), Positives = 102/198 (51%), Gaps = 9/198 (4%) Query: 9 IVRRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLR 68 I+RRL A+ + VS F + ++ GD A + G AT V ++R Q+GLD P + Sbjct: 5 ILRRLAIALCVAVTVSVVSFTLLHM-SGDLAVSIAGPEATAAQVESVRTQFGLDRPMATQ 63 Query: 69 YAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYR 128 Y WLG + + G S PV +MI RLP + L L++V A+ LG+ +A+YR Sbjct: 64 YLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLAAIYR 123 Query: 129 GSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMP 188 ++ DRA + AV ++P F ++IFAV L WL AG+ + + + +P Sbjct: 124 DTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPV---AGNESW-----QHFILP 175 Query: 189 VLTLCCVIVAQMTRMTRA 206 + L + M R+TR+ Sbjct: 176 AVALGYYAMPAMMRLTRS 193 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/208 (29%), Positives = 104/208 (50%), Gaps = 13/208 (6%) Query: 9 IVRRLLQAVLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRL--QYGLDLPAP 66 I R ++QA++ +LL++ VFF +++ G+ +GQ + V LR+ + GLD P Sbjct: 5 IARSVVQALMVVLLMTVIVFFGLHMI-GNPVDILIGQDV--DQVDRLRIIQELGLDQPVW 61 Query: 67 LRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAM 126 +Y +L L GN G S V N P +I RLPA+L LA L+++ + + LG+F+ M Sbjct: 62 RQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAGM 121 Query: 127 YRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAF----- 181 F R V +++ S+P F + + +M F+V L WL + A G Sbjct: 122 KPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWLT 181 Query: 182 ---IKAYAMPVLTLCCVIVAQMTRMTRA 206 + +P + L ++ + R+TRA Sbjct: 182 ADGWRHMILPAINLSLFKISLVIRLTRA 209 >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 = 50/152 (32%), Positives = 84/152 (55%), Gaps = 6/152 (3%) Query: 28 FFITNLLPGD-AAQTALGQAA----TPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPG 82 FF+T +LPGD A + A G+ T E A+R + GLD P + + W LL + G Sbjct: 38 FFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLG 97 Query: 83 MSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVS 142 +S V++ PV I +L +L L+ + +S+ + LG+ + ++ G + DRA +V Sbjct: 98 VSQVSSQPVLAEIAHQLGPTLRLSLLAMALSLLVGPTLGVLAGLHPGRWLDRATLALSVG 157 Query: 143 MVSVPEFLVATVAVMIFAVKLRWLSALSHAGD 174 + ++P FL+ + V++F+V+L L A H GD Sbjct: 158 LRALPSFLLGLILVLLFSVQLGALPAAGH-GD 188 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 0.323 0.133 0.405 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: 614,142 Number of extensions: 23431 Number of successful extensions: 191 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 6 Length of query: 259 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 176 Effective length of database: 1,226,865 Effective search space: 215928240 Effective search space used: 215928240 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)