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= 0029.0072.p (324 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 623 e-180 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 169 4e-43 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 163 2e-41 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 134 1e-32 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 132 4e-32 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 623 bits (1606), Expect = e-180, Method: Compositional matrix adjust. Identities = 322/324 (99%), Positives = 323/324 (99%) Query: 1 MDLNRFLSARSGQRLAAALMPRLLQAVLVALLVGTLCFFMTRMLPGDMAYRIAAGRYGYD 60 MDLNRFLSARSGQRLAAAL+PRLLQAVLVALLVGTLCFFMTRMLPGDMAYRIAAGRYGYD Sbjct: 1 MDLNRFLSARSGQRLAAALVPRLLQAVLVALLVGTLCFFMTRMLPGDMAYRIAAGRYGYD 60 Query: 61 MVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTLRL 120 MVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTLRL Sbjct: 61 MVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTLRL 120 Query: 121 SLLAMVLSLLVGPTLGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGA 180 SLLAM LSLLVGPTLGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGA Sbjct: 121 SLLAMALSLLVGPTLGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGA 180 Query: 181 LPAAGHGDHGGILLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQALAR 240 LPAAGHGDHGGILLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQALAR Sbjct: 181 LPAAGHGDHGGILLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQALAR 240 Query: 241 HGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALVL 300 HGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALVL Sbjct: 241 HGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALVL 300 Query: 301 GLMFVLFNALVDAACAFLDPRGRA 324 GLMFVLFNALVDAACAFLDPRGRA Sbjct: 301 GLMFVLFNALVDAACAFLDPRGRA 324 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 169 bits (427), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 102/281 (36%), Positives = 156/281 (55%), Gaps = 5/281 (1%) Query: 43 MLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLGVSQVS 102 +LPGD A R+AAG D + VR +LGLD+P ++ D G S + Sbjct: 29 LLPGDPA-RLAAGPEADD----KTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRT 83 Query: 103 SQPVLAEIAHQLGPTLRLSLLAMVLSLLVGPTLGVLAGLHPGRWLDRATLALSVGLRALP 162 +PV EI+ + PTL L+++AMV ++L G +G+ + + +W DR + L+V + P Sbjct: 84 KRPVSEEISARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFP 143 Query: 163 SFLLGLILVLLFSVQLGALPAAGHGDHGGILLPALTLALGLAAVSCRVARDAMVQVRQSA 222 +F LG++LV +FSV+LG LP G +LP++TL +AAV R R + +++ Q Sbjct: 144 AFSLGILLVQVFSVKLGWLPTVGDDTWLHYILPSITLGAAVAAVMARFTRSSFIEILQED 203 Query: 223 YFAFALTKGLSPAQALARHGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALV 282 + A KGL+ + +H LRN PV +G+Q L+ G +LVE +F WPG+G LV Sbjct: 204 FVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLV 263 Query: 283 HAIFGRDVPMIQGTALVLGLMFVLFNALVDAACAFLDPRGR 323 A+ RD P+IQ L+ L F+ N +VD A ++P R Sbjct: 264 DAVEMRDYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIR 304 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 107/305 (35%), Positives = 161/305 (52%), Gaps = 6/305 (1%) Query: 19 LMPRLLQAVLVALLVGTLCFFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDR 78 ++ RL A+ VA+ V + F + M GD+A IA T +VR + GLDR Sbjct: 5 ILRRLAIALCVAVTVSVVSFTLLHM-SGDLAVSIAGPE-----ATAAQVESVRTQFGLDR 58 Query: 79 PWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTLRLSLLAMVLSLLVGPTLGVL 138 P +W R + LD G S PV+ IA +L T +L A++L++L LGVL Sbjct: 59 PMATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVL 118 Query: 139 AGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGALPAAGHGDHGGILLPALT 198 A ++ WLDRA L ++V +A+PSF GL L+L+F+V L LP AG+ +LPA+ Sbjct: 119 AAIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGNESWQHFILPAVA 178 Query: 199 LALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQALARHGLRNVAAPVTAYLGVQL 258 L R+ R M++V S Y A KGLS ++ + +H LRN PV A V+L Sbjct: 179 LGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIPVVALAAVEL 238 Query: 259 VMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALVLGLMFVLFNALVDAACAFL 318 ++ G V++E++++ G+G AI D P++Q L++ + ++ L D A L Sbjct: 239 GFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALL 298 Query: 319 DPRGR 323 DPR R Sbjct: 299 DPRIR 303 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 134 bits (336), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 88/292 (30%), Positives = 153/292 (52%), Gaps = 13/292 (4%) Query: 38 FFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLG 97 FF+T +LPGD A + A G+ T E A+R + GLD P + + W LL + G Sbjct: 28 FFITNLLPGDAA-QTALGQAA----TPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPG 82 Query: 98 VSQVSSQPVLAEIAHQLGPTLRLSLLAMVLSLLVGPTLGVLAGLHPGRWLDRATLALSVG 157 +S V++ PV I +L +L L+ + ++S+ + LG+ + ++ G + DRA +V Sbjct: 83 MSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVS 142 Query: 158 LRALPSFLLGLILVLLFSVQLGALPAAGHGDHGGIL--------LPALTLALGLAAVSCR 209 + ++P FL+ + V++F+V+L L A H L +P LTL + A R Sbjct: 143 MVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVIVAQMTR 202 Query: 210 VARDAMVQVRQSAYFAFALTKGLSPAQALARHGLRNVAAPVTAYLGVQLVMLVEGVVLVE 269 + R A++ +S+Y AL KG+ + + RH L N P+ + + L L+ GV++VE Sbjct: 203 MTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVIIVE 262 Query: 270 TIFAWPGIGHALVHAIFGRDVPMIQGTALVLGLMFVLFNALVDAACAFLDPR 321 +IF +PGI ++ A+ RD+P++Q +++ ++L D +PR Sbjct: 263 SIFNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPR 314 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 132 bits (332), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 105/325 (32%), Positives = 168/325 (51%), Gaps = 22/325 (6%) Query: 15 LAAALMPRLLQAVLVALLVGTLCFFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDEL 74 ++ A+ ++QA++V LL+ + FF M+ + I G D V L + EL Sbjct: 1 MSGAIARSVVQALMVVLLMTVIVFFGLHMIGNPVDILI-----GQD-VDQVDRLRIIQEL 54 Query: 75 GLDRPWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTLRLSLLAMVLSLLVGPT 134 GLD+P + + + LH +LG S V + P + I +L TL L+ A++L+L+VG Sbjct: 55 GLDQPVWRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVP 114 Query: 135 LGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGALPAAGHGDHGGI-- 192 LG+ AG+ P R + S+ +LP+F +GL+L++ FSV LG LP+ G G + Sbjct: 115 LGLFAGMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFG 174 Query: 193 --------------LLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQAL 238 +LPA+ L+L ++ R+ R + +V + FA KGLSPA+ + Sbjct: 175 VQWSWLTADGWRHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVV 234 Query: 239 ARHGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTAL 298 + LRN P+ +G++ + V+ E+IFAWPG G ++ +I D P+I + Sbjct: 235 LMYVLRNTLIPLVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLM 294 Query: 299 VLGLMFVLFNALVDAACAFLDPRGR 323 V+ MFV N +VD LDPR R Sbjct: 295 VIVCMFVTINLVVDVLYKLLDPRVR 319 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 0.329 0.141 0.426 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: 848,012 Number of extensions: 28648 Number of successful extensions: 186 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 6 Length of query: 324 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 239 Effective length of database: 1,217,395 Effective search space: 290957405 Effective search space used: 290957405 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)