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= 0020.0413.p (266 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 377 e-106 gi|300310466|ref|YP_003774558.1| dipeptide/oligopeptide/nickel A... 117 1e-27 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 90 2e-19 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 89 2e-19 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 76 3e-15 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 377 bits (969), Expect = e-106, Method: Compositional matrix adjust. Identities = 194/196 (98%), Positives = 194/196 (98%) Query: 71 GKFLAATVLASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSML 130 G LAATVLASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSML Sbjct: 98 GLALAATVLASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSML 157 Query: 131 LLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMIRPVLAD 190 LLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMIRPVLAD Sbjct: 158 LLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMIRPVLAD 217 Query: 191 FGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAVIMPALAIASLTIG 250 FGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAVIMPALAIASLTIG Sbjct: 218 FGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAVIMPALAIASLTIG 277 Query: 251 VNLLIDNLRSKRAAKE 266 VNLLIDNLRSKRAAKE Sbjct: 278 VNLLIDNLRSKRAAKE 293 >gi|300310466|ref|YP_003774558.1| dipeptide/oligopeptide/nickel ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 645 Score = 117 bits (292), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 71/72 (98%), Positives = 72/72 (100%) Query: 1 VKQFDIFLGKESGAGAGGAGSGAALRPLVEVQGLRVNARKEDGSQVEIVKNVNFTVARGE 60 +KQFDIFLGKESGAGAGGAGSGAALRPLVEVQGLRVNARKEDGSQVEIVKNVNFTVARGE Sbjct: 1 MKQFDIFLGKESGAGAGGAGSGAALRPLVEVQGLRVNARKEDGSQVEIVKNVNFTVARGE 60 Query: 61 VLALIGESGSGK 72 VLALIGESGSGK Sbjct: 61 VLALIGESGSGK 72 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 89.7 bits (221), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/190 (31%), Positives = 103/190 (54%) Query: 74 LAATVLASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSMLLLV 133 LAA +++ GT + + A + GG DAVIS + +++P + AL M + G S+ +++ Sbjct: 111 LAAALISGLIGTTLGVLAGYFGGRTDAVISYLITTRLAMPVVLVALAMASLVGGSLKVVI 170 Query: 134 LTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMIRPVLADFGL 193 + + + RS ++ E++ AA+A G YI+ E+LPN++ ++ L Sbjct: 171 VLLGLLLWDRFAVVTRSATQQLRDAEFIAAAKAIGASTPYILLREILPNIMGALIVVVTL 230 Query: 194 RFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAVIMPALAIASLTIGVNL 253 + +LL + LSFL LGVQPP WG +V E + + +++P +A+A L + +NL Sbjct: 231 EMAHAILLEATLSFLGLGVQPPTPSWGLMVAEGKTYMFFKPWVIVIPGVALALLVLAINL 290 Query: 254 LIDNLRSKRA 263 + D LR A Sbjct: 291 VGDGLRDVNA 300 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 89.4 bits (220), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 51/187 (27%), Positives = 92/187 (49%) Query: 79 LASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSMLLLVLTAAI 138 + + GT L A + GW D + R D L + P + A+ +VA G M+ ++++ ++ Sbjct: 120 IGAVIGTVFGLLAGYYEGWWDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSV 179 Query: 139 TYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYV 198 +P R+ R + ++ + Y++A R+ G IM + P I ++ F +R Sbjct: 180 FSIPAFARLVRGNTLQLKNLTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTS 239 Query: 199 VLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAVIMPALAIASLTIGVNLLIDNL 258 ++ +GLSFL LG Q P +WG ++ E + + ++P++AI + NLL D L Sbjct: 240 IITAAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGL 299 Query: 259 RSKRAAK 265 R K Sbjct: 300 RDALDPK 306 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 75.9 bits (185), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 54/186 (29%), Positives = 92/186 (49%), Gaps = 1/186 (0%) Query: 76 ATVLASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSMLLLVLT 135 + ++A GT I L AA++GG D ++ R D ++S PS + A++++A G + ++ T Sbjct: 127 SALIAGVIGTLIGLLAAYAGGKLDTLLMRFADLVLSFPSILVAMLILAYVGKGIFNVMAT 186 Query: 136 AAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMIRPVLADFGLRF 195 + R AR A+ + EYV+AAR W IM +LPN + P++ L+ Sbjct: 187 LVVLEWAYYARTARGQALVERRKEYVEAARGLNLSSWRIMVRHILPNCLPPLIVIGTLQV 246 Query: 196 VYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAV-IMPALAIASLTIGVNLL 254 + L + LSFL LGV + G L+ + G + P + + + + +NL+ Sbjct: 247 ARAITLEATLSFLGLGVPITEPSLGLLISNGYQYMLSGEYWISFYPGITLLVVIVAINLV 306 Query: 255 IDNLRS 260 D LR Sbjct: 307 GDRLRD 312 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 0.322 0.136 0.381 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: 668,099 Number of extensions: 24321 Number of successful extensions: 304 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 305 Number of HSP's successfully gapped: 7 Length of query: 266 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 182 Effective length of database: 1,222,130 Effective search space: 222427660 Effective search space used: 222427660 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)