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= 0037.0088.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 539 e-154 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 211 5e-56 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 186 2e-48 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 124 1e-29 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 112 4e-26 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 539 bits (1389), Expect = e-154, Method: Compositional matrix adjust. Identities = 278/323 (86%), Positives = 305/323 (94%) Query: 1 MSGAILRSVLQALAVLLLMTVIVFFGLHMIGNPVDTLIGPDVDQVDRLRIIKELGFDQPI 60 MSGAI RSV+QAL V+LLMTVIVFFGLHMIGNPVD LIG DVDQVDRLRII+ELG DQP+ Sbjct: 1 MSGAIARSVVQALMVVLLMTVIVFFGLHMIGNPVDILIGQDVDQVDRLRIIQELGLDQPV 60 Query: 61 WRQYLAFLNSALHGNLGNSFVYNEPAIKLIFQRLPATLELAFAALILAVLIGIPLGLLAG 120 WRQYLAFLN ALHGNLGNSFVYN PAI LIFQRLPATLELA AAL+LA+++G+PLGL AG Sbjct: 61 WRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAG 120 Query: 121 LFPENIFSRMVMTGSILGFSLPTFWIGLMLIMAFSVSLGWLPSGGRGETAGLFGVQWSWL 180 + P++ FSR+VMT SI GFSLPTFWIGLMLIMAFSV+LGWLPSGGRG+TA LFGVQWSWL Sbjct: 121 MKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWL 180 Query: 181 TVDGLRHLILPALNLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLAPLRVVLMYVLR 240 T DG RH+ILPA+NLSLFKISLVIRLTRANVREVLPMDFVKFARAKGL+P RVVLMYVLR Sbjct: 181 TADGWRHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLR 240 Query: 241 NTLIPLVTILGLEFGSTIAFAVVTESIFAWPGSGKLILDSINALDRPVIVAYMMVIVCLF 300 NTLIPLVT++GLEFGSTIAFAVVTESIFAWPG+GKLILDSINALDRPVIVAY+MVIVC+F Sbjct: 241 NTLIPLVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMF 300 Query: 301 VTLNLIVDVLYKVLDPRVRVEAE 323 VT+NL+VDVLYK+LDPRVRVEA+ Sbjct: 301 VTINLVVDVLYKLLDPRVRVEAK 323 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 211 bits (538), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 115/317 (36%), Positives = 188/317 (59%), Gaps = 16/317 (5%) Query: 5 ILRSVLQALAVLLLMTVIVFFGLHMIGNPVDTLIGPDVDQVDRLRIIKELGFDQPIWRQY 64 ILR + AL V + ++V+ F LHM G+ ++ GP+ + + G D+P+ QY Sbjct: 5 ILRRLAIALCVAVTVSVVSFTLLHMSGDLAVSIAGPEATAAQVESVRTQFGLDRPMATQY 64 Query: 65 LAFLNSALHGNLGNSFVYNEPAIKLIFQRLPATLELAFAALILAVLIGIPLGLLAGLFPE 124 L +L A+ + G SF + P +++I +RLP T +L +AL+LAVL IPLG+LA ++ + Sbjct: 65 LDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLAAIYRD 124 Query: 125 NIFSRMVMTGSILGFSLPTFWIGLMLIMAFSVSLGWLPSGGRGETAGLFGVQWSWLTVDG 184 R + +++G ++P+FW GL LI+ F+V+L WLP G SW Sbjct: 125 TWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGNE----------SW----- 169 Query: 185 LRHLILPALNLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLAPLRVVLMYVLRNTLI 244 +H ILPA+ L + + ++RLTR+ + EVL D+++ ARAKGL+ RVV + LRN +I Sbjct: 170 -QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVI 228 Query: 245 PLVTILGLEFGSTIAFAVVTESIFAWPGSGKLILDSINALDRPVIVAYMMVIVCLFVTLN 304 P+V + +E G + +VV ES+++ G G+L D+I+ D PV+ A +++I ++ L Sbjct: 229 PVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLT 288 Query: 305 LIVDVLYKVLDPRVRVE 321 + DV+ +LDPR+R Sbjct: 289 FLADVINALLDPRIRTR 305 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 186 bits (473), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 104/291 (35%), Positives = 168/291 (57%), Gaps = 16/291 (5%) Query: 31 GNPVDTLIGPDVDQVDRLRIIKELGFDQPIWRQYLAFLNSALHGNLGNSFVYNEPAIKLI 90 G+P GP+ D + +LG D+P+ Q++ F +A G+ G+S P + I Sbjct: 32 GDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPVSEEI 91 Query: 91 FQRLPATLELAFAALILAVLIGIPLGLLAGLFPENIFSRMVMTGSILGFSLPTFWIGLML 150 R TL L A++ AVL G+ +G+ + ++ R+ MT ++ G S P F +G++L Sbjct: 92 SARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSLGILL 151 Query: 151 IMAFSVSLGWLPSGGRGETAGLFGVQWSWLTVDGLRHLILPALNLSLFKISLVIRLTRAN 210 + FSV LGWLP+ G +WL H ILP++ L +++ R TR++ Sbjct: 152 VQVFSVKLGWLPTVGDD----------TWL------HYILPSITLGAAVAAVMARFTRSS 195 Query: 211 VREVLPMDFVKFARAKGLAPLRVVLMYVLRNTLIPLVTILGLEFGSTIAFAVVTESIFAW 270 E+L DFV+ ARAKGL VV+ + LRN LIP+VT++GL+FG + +++ E +F W Sbjct: 196 FIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFNW 255 Query: 271 PGSGKLILDSINALDRPVIVAYMMVIVCLFVTLNLIVDVLYKVLDPRVRVE 321 PG G+L++D++ D PVI A +++ F+ +NL+VDVLY V++P +R + Sbjct: 256 PGMGRLLVDAVEMRDYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIRFK 306 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 124 bits (311), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 88/305 (28%), Positives = 152/305 (49%), Gaps = 19/305 (6%) Query: 23 VFFGLHMI-GNPVDTLIGPDV--DQVDRLRIIKELGFDQPIWRQYLAFLNSALHGNLGNS 79 VFF +++ G+ T +G + V LR+ + G D P +Y +L + L GN G S Sbjct: 27 VFFITNLLPGDAAQTALGQAATPETVAALRL--QYGLDLPAPLRYAHWLGNLLSGNPGMS 84 Query: 80 FVYNEPAIKLIFQRLPATLELAFAALILAVLIGIPLGLLAGLFPENIFSRMVMTGSILGF 139 V N P ++I RLPA+L LA +++V + + LG+ + ++ + F R V ++ Sbjct: 85 LVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMV 144 Query: 140 SLPTFWIGLMLIMAFSVSLGWLPS---GGRGETAGLFGVQWSWLTVDGLRHLILPALNLS 196 S+P F + + +M F+V L WL + G T G F ++ +P L L Sbjct: 145 SVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAF-----------IKAYAMPVLTLC 193 Query: 197 LFKISLVIRLTRANVREVLPMDFVKFARAKGLAPLRVVLMYVLRNTLIPLVTILGLEFGS 256 ++ + R+TRA V + L + + A KG+ R+VL + L N + P+ + L Sbjct: 194 CVIVAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSY 253 Query: 257 TIAFAVVTESIFAWPGSGKLILDSINALDRPVIVAYMMVIVCLFVTLNLIVDVLYKVLDP 316 + ++ ESIF +PG L++D++ D P++ A M+ ++ L L DVL V +P Sbjct: 254 LLGGVIIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNP 313 Query: 317 RVRVE 321 R++ Sbjct: 314 RLKTR 318 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 112 bits (280), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 92/273 (33%), Positives = 145/273 (53%), Gaps = 16/273 (5%) Query: 48 LRIIKELGFDQPIWRQYLAFLNSALHGNLGNSFVYNEPAIKLIFQRLPATLELAFAALIL 107 L + ELG D+P + + + LH +LG S V ++P + I +L TL L+ A+ L Sbjct: 68 LAVRDELGLDRPWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTLRLSLLAMAL 127 Query: 108 AVLIGIPLGLLAGLFPENIFSRMVMTGSILGFSLPTFWIGLMLIMAFSVSLGWLPSGGRG 167 ++L+G LG+LAGL P R + S+ +LP+F +GL+L++ FSV LG LP+ G G Sbjct: 128 SLLVGPTLGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGALPAAGHG 187 Query: 168 ETAGLFGVQWSWLTVDGLRHLILPALNLSLFKISLVIRLTRANVREVLPMDFVKFARAKG 227 + G ++LPAL L+L ++ R+ R + +V + FA KG Sbjct: 188 DHGG----------------ILLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKG 231 Query: 228 LAPLRVVLMYVLRNTLIPLVTILGLEFGSTIAFAVVTESIFAWPGSGKLILDSINALDRP 287 L+P + + + LRN P+ LG++ + V+ E+IFAWPG G ++ +I D P Sbjct: 232 LSPAQALARHGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVP 291 Query: 288 VIVAYMMVIVCLFVTLNLIVDVLYKVLDPRVRV 320 +I +V+ +FV N +VD LDPR R Sbjct: 292 MIQGTALVLGLMFVLFNALVDAACAFLDPRGRA 324 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 0.330 0.146 0.435 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: 917,884 Number of extensions: 36513 Number of successful extensions: 172 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 161 Number of HSP's successfully gapped: 6 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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 (21.8 bits) S2: 131 (55.1 bits)