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= 0031.0109.p (303 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 365 e-102 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 195 3e-51 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 160 9e-41 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 119 4e-28 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 92 6e-20 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 365 bits (937), Expect = e-102, Method: Compositional matrix adjust. Identities = 180/289 (62%), Positives = 230/289 (79%) Query: 13 DTPFTRFLQGYFASRIATFGFALLLLILLAALFAPLVSPQNPYDLEHLDVMDSRLEPGKT 72 ++P+ R ++ + ASR A G ++LL+++ A+ AP ++PQNPYDL LDV+D+RL PG Sbjct: 31 ESPWRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPGTL 90 Query: 73 AMEGNLTYVLGTDDQGRDMLSAILYGLRISVMVGVTSTVIALAIGLSLGLLAGYAGGRIE 132 G TY LGTD QGRD++SAILYGLRISV +GV S +IA IG +GLLA YAGG+++ Sbjct: 91 NGAGTYTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKLD 150 Query: 133 ALIMRVADIQLAFPPILVALILLALTGRGIDKIIIALVTVQWAYYARTTRSTALVERKKE 192 L+MR AD+ L+FP ILVA+++LA G+GI ++ LV ++WAYYART R ALVER+KE Sbjct: 151 TLLMRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKE 210 Query: 193 YIEAARLLGLSPLRIMFRHLLPNCLPPLIVIAALQVASAISLEATLSFLGLGLPVTEPSL 252 Y+EAAR L LS RIM RH+LPNCLPPLIVI LQVA AI+LEATLSFLGLG+P+TEPSL Sbjct: 211 YVEAARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEPSL 270 Query: 253 GLLISNGFQYLMSGKYWISFFPGVALLATVVAINLVADQLRDVLNPRLQ 301 GLLISNG+QY++SG+YWISF+PG+ LL +VAINLV D+LRD+LNPR Q Sbjct: 271 GLLISNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRDILNPRWQ 319 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 195 bits (496), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 120/283 (42%), Positives = 175/283 (61%), Gaps = 5/283 (1%) Query: 16 FTRFLQGYFASRIATFGFALLLLILLAALFAPLVSPQNPYDLEHLDVMDSRLEPGKTAME 75 + R L+ R G A+L +I+LAA+FAPL++P +P+D + + +RL P + Sbjct: 24 WRRKLRRLLGHRGLMIGAAVLAVIVLAAIFAPLLAPHDPFDQD----VTARLIPPVWQAQ 79 Query: 76 GNLTYVLGTDDQGRDMLSAILYGLRISVMVGVTSTVIALAIGLSLGLLAGYAGGRIEALI 135 G+ ++LGTD GRD S ++YG R+S+ +G+ + +I+ IG +LG+LAGY GGR +A+I Sbjct: 80 GSWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRTDAVI 139 Query: 136 MRVADIQLAFPPILVALILLALTGRGIDKIIIALVTVQWAYYARTTRSTALVERKKEYIE 195 + +LA P +LVAL + +L G + +I+ L + W +A TRS R E+I Sbjct: 140 SYLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQLRDAEFIA 199 Query: 196 AARLLGLSPLRIMFRHLLPNCLPPLIVIAALQVASAISLEATLSFLGLGLPVTEPSLGLL 255 AA+ +G S I+ R +LPN + LIV+ L++A AI LEATLSFLGLG+ PS GL+ Sbjct: 200 AAKAIGASTPYILLREILPNIMGALIVVVTLEMAHAILLEATLSFLGLGVQPPTPSWGLM 259 Query: 256 ISNGFQYLMSGKYWISFFPGVALLATVVAINLVADQLRDVLNP 298 ++ G Y M K W+ PGVAL V+AINLV D LRDV P Sbjct: 260 VAEGKTY-MFFKPWVIVIPGVALALLVLAINLVGDGLRDVNAP 301 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 160 bits (406), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 90/288 (31%), Positives = 152/288 (52%), Gaps = 10/288 (3%) Query: 14 TPFTRFLQGYFASRIATFGFALLLLILLAALFAPLVSPQNPYDLEHLDVMDSRLEPGKTA 73 TP+ F + + +A + +L ++ A+ AP + P +P + D ++S Sbjct: 31 TPWREFWRKFKKQHLAVYAGVFILFLVAVAILAPWIVPFDPENFFDYDALNS-------- 82 Query: 74 MEGNLTYVLGTDDQGRDMLSAILYGLRISVMVGVTSTVIALAIGLSLGLLAGYAGGRIEA 133 + G D GRD+ S I+ G RIS+ G S I IG GLLAGY G + Sbjct: 83 -PPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDR 141 Query: 134 LIMRVADIQLAFPPILVALILLALTGRGIDKIIIALVTVQWAYYARTTRSTALVERKKEY 193 + MR+ D+ AFP IL+A+ ++A+ G G+ +II++ +AR R L + Y Sbjct: 142 ITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTY 201 Query: 194 IEAARLLGLSPLRIMFRHLLPNCLPPLIVIAALQVASAISLEATLSFLGLGLPVTEPSLG 253 IEA R +G S + IM++H+ P + ++V +++ ++I A LSFLGLG P G Sbjct: 202 IEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWG 261 Query: 254 LLISNGFQYLMSGKYWISFFPGVALLATVVAINLVADQLRDVLNPRLQ 301 L+++ +++ + ++ P +A+ TV+A NL+ D LRD L+P++ Sbjct: 262 LMLNEARADMVTSPH-VALVPSIAIFLTVLAFNLLGDGLRDALDPKID 308 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 119 bits (297), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 135/251 (53%), Gaps = 6/251 (2%) Query: 51 PQNPYDLEHLDVMDSRLEPGKTAMEGNLTYVLGTDDQGRDMLSAILYGLRISVMVGVTST 110 P N Y L+ + P + E LGTDD+GRD+ + +LYG R+SV+ G+ T Sbjct: 103 PPNRYGYNTLNYFAKQPNPAAPSSEN----WLGTDDRGRDVFARLLYGFRVSVLFGMALT 158 Query: 111 VIALAIGLSLGLLAGYAGGRIEALIMRVADIQLAFPPILVALILLALTGRGIDKIIIALV 170 I + +G++ G + GY GR + R+ +I + P + + +I ++ + +++ L Sbjct: 159 FIGVVLGVAAGAVQGYFAGRTDLFTQRLLEIWGSMPELYLLIIFSSIFQPSLGLLLVLLS 218 Query: 171 TVQWAYYARTTRSTALVERKKEYIEAARLLGLSPLRIMFRHLLPNCLPPLIVIAALQVAS 230 W + R+ L R EYI+AAR +GL I++RH+LPN + ++ ++++ Sbjct: 219 LFGWMSLSDYVRADFLRNRNLEYIQAARAMGLPDRLIIWRHVLPNSMTTVVTFLPFRMSA 278 Query: 231 AISLEATLSFLGLGLPVTEPSLGLLISNGFQYLMSGKYWISFFPGVALLATVVAINLVAD 290 AI +L FLGLG+P + PSLG L++ G L + +WI+ V L T++ + + + Sbjct: 279 AILALTSLDFLGLGVPPSTPSLGELLAQGKNNLDA--WWIALSTFVVLTVTLLLLTNIGN 336 Query: 291 QLRDVLNPRLQ 301 LR+ L+ R + Sbjct: 337 ALRNALDVRRK 347 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 91.7 bits (226), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 80/271 (29%), Positives = 138/271 (50%), Gaps = 15/271 (5%) Query: 26 SRIATFGFALLLLILLAALFAPLVSPQNPYDLEHLDVMDSRLEPGKTAMEGNLTYVLGTD 85 S +A G A++ +L A+ P +SP + + DV + ++LG+D Sbjct: 30 STMAWIGMAIVGFWILMAILGPSISPYDATAIVDTDVFSGM----------SHKFLLGSD 79 Query: 86 DQGRDMLSAILYGLRISVMVGVTSTVIALAIGLSLGLLAGYAGGRIEALIMRVADIQLAF 145 GRDMLS IL+G R ++ + + +TV+A A G ++ L A ++GG +A+I R D ++ Sbjct: 80 YLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVISRALDALISI 139 Query: 146 PPILVALILLALTGRGIDKIII--ALVTVQWAYYARTTRSTALVERKKEYIEAARLLGLS 203 P + AL+++A G + +++ A+ + AY R RS A+ + EY++AAR G Sbjct: 140 PSKMFALMMVATFGSSMLLLVLTAAITYMPGAY--RIARSLAVNVQAMEYVQAARARGEG 197 Query: 204 PLRIMFRHLLPNCLPPLIVIAALQVASAISLEATLSFLGLGLPVTEPSLGLLISNGFQYL 263 IM +LPN + P++ L+ + L + LSFL LG+ + G L+ L Sbjct: 198 VWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGL 257 Query: 264 MSGKYWISFFPGVALLATVVAINLVADQLRD 294 G + P +A+ + + +NL+ D LR Sbjct: 258 GEGALAV-IMPALAIASLTIGVNLLIDNLRS 287 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 0.326 0.142 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: 748,887 Number of extensions: 26856 Number of successful extensions: 166 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 7 Length of query: 303 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 218 Effective length of database: 1,217,395 Effective search space: 265392110 Effective search space used: 265392110 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 (21.6 bits) S2: 130 (54.7 bits)