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= 0037.0038.p (310 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 617 e-178 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 180 2e-46 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 179 4e-46 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 119 3e-28 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 103 3e-23 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 617 bits (1591), Expect = e-178, Method: Compositional matrix adjust. Identities = 310/310 (100%), Positives = 310/310 (100%) Query: 1 MSLSNAPISDTGAPLPPPGPAVAASGQKIRTPWREFWRKFKKQHLAVYAGVFILFLVAVA 60 MSLSNAPISDTGAPLPPPGPAVAASGQKIRTPWREFWRKFKKQHLAVYAGVFILFLVAVA Sbjct: 1 MSLSNAPISDTGAPLPPPGPAVAASGQKIRTPWREFWRKFKKQHLAVYAGVFILFLVAVA 60 Query: 61 ILAPWIVPFDPENFFDYDALNSPPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAI 120 ILAPWIVPFDPENFFDYDALNSPPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAI Sbjct: 61 ILAPWIVPFDPENFFDYDALNSPPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAI 120 Query: 121 GAVIGTVFGLLAGYYEGWWDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVF 180 GAVIGTVFGLLAGYYEGWWDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVF Sbjct: 121 GAVIGTVFGLLAGYYEGWWDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVF 180 Query: 181 SIPAFARLVRGNTLQLKNLTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSI 240 SIPAFARLVRGNTLQLKNLTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSI Sbjct: 181 SIPAFARLVRGNTLQLKNLTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSI 240 Query: 241 ITAAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLR 300 ITAAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLR Sbjct: 241 ITAAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLR 300 Query: 301 DALDPKIDQR 310 DALDPKIDQR Sbjct: 301 DALDPKIDQR 310 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 180 bits (456), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 104/289 (35%), Positives = 156/289 (53%), Gaps = 10/289 (3%) Query: 28 KIRTPWREFWRKFKKQHLAVYAGVFILFLVAVAILAPWIVPFDPENFFDYD--------- 78 + +PWR R F A+ V +L L+ AI APWI P +P + D Sbjct: 29 RRESPWRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPG 88 Query: 79 ALNSPPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGW 138 LN T+ +W G D GRD+ S I+ G RIS+ G S I VIGT+ GLLA Y G Sbjct: 89 TLNGAGTYTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGK 148 Query: 139 WDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKN 198 D + MR D++ +FP IL+A+ I+A +G G+ NV+ ++ V +AR RG L + Sbjct: 149 LDTLLMRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERR 208 Query: 199 LTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTP 258 Y+EA R + S IM +HI P + ++V T+++ +I A LSFLGLG P Sbjct: 209 KEYVEAARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEP 268 Query: 259 EWGLMLNEARADMVTSPH-VALVPSIAIFLTVLAFNLLGDGLRDALDPK 306 GL+++ M++ + ++ P I + + ++A NL+GD LRD L+P+ Sbjct: 269 SLGLLISNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRDILNPR 317 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 179 bits (453), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 105/282 (37%), Positives = 153/282 (54%), Gaps = 11/282 (3%) Query: 33 WREFWRKFKKQHLAVYAGVFILFLVAVAILAPWIVPFDPENFFDYDALNS--PP------ 84 WR R+ + + +V AI AP + P DP FD D PP Sbjct: 24 WRRKLRRLLGHRGLMIGAAVLAVIVLAAIFAPLLAPHDP---FDQDVTARLIPPVWQAQG 80 Query: 85 TWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDRITM 144 +W H G D LGRD FSR++ G R+SL G + I +IGT G+LAGY+ G D + Sbjct: 81 SWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRTDAVIS 140 Query: 145 RICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIEA 204 + A P +L+A+ + +++GG + VI+ + + FA + R T QL++ +I A Sbjct: 141 YLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQLRDAEFIAA 200 Query: 205 TRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWGLML 264 ++IGAS I+ + I P + A++V T+ + +I+ A LSFLGLG Q PTP WGLM+ Sbjct: 201 AKAIGASTPYILLREILPNIMGALIVVVTLEMAHAILLEATLSFLGLGVQPPTPSWGLMV 260 Query: 265 NEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLRDALDPK 306 E + M P V ++P +A+ L VLA NL+GDGLRD P Sbjct: 261 AEGKTYMFFKPWVIVIPGVALALLVLAINLVGDGLRDVNAPD 302 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 119 bits (298), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 132/242 (54%), Gaps = 9/242 (3%) Query: 71 PENFFDYDALN--------SPPTWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGA 122 P N + Y+ LN + P+ +W G D GRD+F+R++ G R+S+ G IG Sbjct: 103 PPNRYGYNTLNYFAKQPNPAAPSSENWLGTDDRGRDVFARLLYGFRVSVLFGMALTFIGV 162 Query: 123 VIGTVFGLLAGYYEGWWDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSI 182 V+G G + GY+ G D T R+ ++ + P + L I +I + +++ +S+F Sbjct: 163 VLGVAAGAVQGYFAGRTDLFTQRLLEIWGSMPELYLLIIFSSIFQPSLGLLLVLLSLFGW 222 Query: 183 PAFARLVRGNTLQLKNLTYIEATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIIT 242 + + VR + L+ +NL YI+A R++G D I+W+H+ P +++ +V + R+ +I+ Sbjct: 223 MSLSDYVRADFLRNRNLEYIQAARAMGLPDRLIIWRHVLPNSMTTVVTFLPFRMSAAILA 282 Query: 243 AAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLRDA 302 L FLGLG TP G +L + + ++ + +AL + + +T+L +G+ LR+A Sbjct: 283 LTSLDFLGLGVPPSTPSLGELLAQGKNNL-DAWWIALSTFVVLTVTLLLLTNIGNALRNA 341 Query: 303 LD 304 LD Sbjct: 342 LD 343 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 103 bits (256), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 79/283 (27%), Positives = 134/283 (47%), Gaps = 17/283 (6%) Query: 27 QKIRTPWREFWRKFKKQHLAVYAGVFIL-FLVAVAILAPWIVPFDPENFFDYDALNSPPT 85 +++R W G+ I+ F + +AIL P I P+D D D + Sbjct: 24 KRVRRHSTMAW-----------IGMAIVGFWILMAILGPSISPYDATAIVDTDVFSGMS- 71 Query: 86 WVHWF--GVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDRIT 143 H F G D LGRD+ SRI+ GTR ++ + + + GT L A + GW D + Sbjct: 72 --HKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVI 129 Query: 144 MRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIE 203 R D L + P + A+ +VA G M+ ++++ ++ +P R+ R + ++ + Y++ Sbjct: 130 SRALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQ 189 Query: 204 ATRSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWGLM 263 A R+ G IM + P I ++ F +R ++ +GLSFL LG Q P +WG + Sbjct: 190 AARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSL 249 Query: 264 LNEARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLRDALDPK 306 + E + + ++P++AI + NLL D LR K Sbjct: 250 VRENISGLGEGALAVIMPALAIASLTIGVNLLIDNLRSKRAAK 292 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 0.142 0.449 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: 838,625 Number of extensions: 32682 Number of successful extensions: 173 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 168 Number of HSP's successfully gapped: 6 Length of query: 310 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 225 Effective length of database: 1,217,395 Effective search space: 273913875 Effective search space used: 273913875 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: 130 (54.7 bits)