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= 0032.0120.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|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 477 e-136 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 166 2e-42 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 159 2e-40 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 132 3e-32 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 129 3e-31 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 477 bits (1227), Expect = e-136, Method: Compositional matrix adjust. Identities = 288/325 (88%), Positives = 301/325 (92%), Gaps = 2/325 (0%) Query: 1 MDLTRFLTLPPATRRQLASALGQRLLQAALVALLVGTLCFFMTRLLPGDMAYRIAAGRYG 60 MDL RFL+ R LA+AL RLLQA LVALLVGTLCFFMTR+LPGDMAYRIAAGRYG Sbjct: 1 MDLNRFLSARSGQR--LAAALVPRLLQAVLVALLVGTLCFFMTRMLPGDMAYRIAAGRYG 58 Query: 61 YDMVTTEAALAVRAELGLDQPWFMALSEWWSRLLHLDLGVSQVTALPVLVEITHQLGPTL 120 YDMVTTEAALAVR ELGLD+PWFMALSEWWSRLLHLDLGVSQV++ PVL EI HQLGPTL Sbjct: 59 YDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLGVSQVSSQPVLAEIAHQLGPTL 118 Query: 121 RLSFLAMVLSLLIGPTLGVLAGLHPGGWLDRATLAVSVLLRALPSFLLGLVLVLLFSVQL 180 RLS LAM LSLL+GPTLGVLAGLHPG WLDRATLA+SV LRALPSFLLGL+LVLLFSVQL Sbjct: 119 RLSLLAMALSLLVGPTLGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQL 178 Query: 181 GALPAAGHTDHGGILLPALTLALGLAAVSCRVARDAMVQVRASEYFAFALTKGLTPAQAL 240 GALPAAGH DHGGILLPALTLALGLAAVSCRVARDAMVQVR S YFAFALTKGL+PAQAL Sbjct: 179 GALPAAGHGDHGGILLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQAL 238 Query: 241 LRHGVRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTAL 300 RHG+RNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTAL Sbjct: 239 ARHGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTAL 298 Query: 301 VLGLLFVLFNALVDAACAFIDPRRR 325 VLGL+FVLFNALVDAACAF+DPR R Sbjct: 299 VLGLMFVLFNALVDAACAFLDPRGR 323 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 166 bits (421), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 104/281 (37%), Positives = 155/281 (55%), Gaps = 5/281 (1%) Query: 45 LLPGDMAYRIAAGRYGYDMVTTEAALAVRAELGLDQPWFMALSEWWSRLLHLDLGVSQVT 104 LLPGD A R+AAG D + VRA+LGLD+P ++ D G S T Sbjct: 29 LLPGDPA-RLAAGPEADD----KTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRT 83 Query: 105 ALPVLVEITHQLGPTLRLSFLAMVLSLLIGPTLGVLAGLHPGGWLDRATLAVSVLLRALP 164 PV EI+ + PTL L+ +AMV ++L G +G+ + + W DR + ++V + P Sbjct: 84 KRPVSEEISARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFP 143 Query: 165 SFLLGLVLVLLFSVQLGALPAAGHTDHGGILLPALTLALGLAAVSCRVARDAMVQVRASE 224 +F LG++LV +FSV+LG LP G +LP++TL +AAV R R + +++ + Sbjct: 144 AFSLGILLVQVFSVKLGWLPTVGDDTWLHYILPSITLGAAVAAVMARFTRSSFIEILQED 203 Query: 225 YFAFALTKGLTPAQALLRHGVRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALV 284 + A KGLT +++H +RN PV +G+Q L+ G +LVE +F WPG+G LV Sbjct: 204 FVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLV 263 Query: 285 HAIFGRDVPMIQGTALVLGLLFVLFNALVDAACAFIDPRRR 325 A+ RD P+IQ L+ L F+ N +VD A I+P R Sbjct: 264 DAVEMRDYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIR 304 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 159 bits (403), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 101/303 (33%), Positives = 160/303 (52%), Gaps = 6/303 (1%) Query: 23 QRLLQAALVALLVGTLCFFMTRLLPGDMAYRIAAGRYGYDMVTTEAALAVRAELGLDQPW 82 +RL A VA+ V + F + + GD+A IA T +VR + GLD+P Sbjct: 7 RRLAIALCVAVTVSVVSFTLLHM-SGDLAVSIAGPE-----ATAAQVESVRTQFGLDRPM 60 Query: 83 FMALSEWWSRLLHLDLGVSQVTALPVLVEITHQLGPTLRLSFLAMVLSLLIGPTLGVLAG 142 +W R + LD G S PV+ I +L T +L A++L++L LGVLA Sbjct: 61 ATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLAA 120 Query: 143 LHPGGWLDRATLAVSVLLRALPSFLLGLVLVLLFSVQLGALPAAGHTDHGGILLPALTLA 202 ++ WLDRA L ++V+ +A+PSF GL L+L+F+V L LP AG+ +LPA+ L Sbjct: 121 IYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGNESWQHFILPAVALG 180 Query: 203 LGLAAVSCRVARDAMVQVRASEYFAFALTKGLTPAQALLRHGVRNVAAPVTAYLGVQLVM 262 R+ R M++V S+Y A KGL+ ++ + +H +RN PV A V+L Sbjct: 181 YYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIPVVALAAVELGF 240 Query: 263 LVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALVLGLLFVLFNALVDAACAFIDP 322 ++ G V++E++++ G+G AI D P++Q L++ + ++ L D A +DP Sbjct: 241 MLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDP 300 Query: 323 RRR 325 R R Sbjct: 301 RIR 303 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 90/294 (30%), Positives = 152/294 (51%), Gaps = 13/294 (4%) Query: 40 FFMTRLLPGDMAYRIAAGRYGYDMVTTEAALAVRAELGLDQPWFMALSEWWSRLLHLDLG 99 FF+T LLPGD A + A G+ T E A+R + GLD P + + W LL + G Sbjct: 28 FFITNLLPGDAA-QTALGQAA----TPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPG 82 Query: 100 VSQVTALPVLVEITHQLGPTLRLSFLAMVLSLLIGPTLGVLAGLHPGGWLDRATLAVSVL 159 +S V +PV I +L +L L+ + ++S+ + LG+ + ++ G + DRA +V Sbjct: 83 MSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVS 142 Query: 160 LRALPSFLLGLVLVLLFSVQLGALPAAGHTDHGGIL--------LPALTLALGLAAVSCR 211 + ++P FL+ V V++F+V+L L A H L +P LTL + A R Sbjct: 143 MVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVIVAQMTR 202 Query: 212 VARDAMVQVRASEYFAFALTKGLTPAQALLRHGVRNVAAPVTAYLGVQLVMLVEGVVLVE 271 + R A++ S Y AL KG+ + +LRH + N P+ + + L L+ GV++VE Sbjct: 203 MTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVIIVE 262 Query: 272 TIFAWPGIGHALVHAIFGRDVPMIQGTALVLGLLFVLFNALVDAACAFIDPRRR 325 +IF +PGI ++ A+ RD+P++Q +++ ++L D +PR + Sbjct: 263 SIFNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLK 316 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 129 bits (324), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 102/325 (31%), Positives = 171/325 (52%), Gaps = 22/325 (6%) Query: 17 LASALGQRLLQAALVALLVGTLCFFMTRLLPGDMAYRIAAGRYGYDMVTTEAALAVRAEL 76 ++ A+ + ++QA +V LL+ + FF ++ + I G D V L + EL Sbjct: 1 MSGAIARSVVQALMVVLLMTVIVFFGLHMIGNPVDILI-----GQD-VDQVDRLRIIQEL 54 Query: 77 GLDQPWFMALSEWWSRLLHLDLGVSQVTALPVLVEITHQLGPTLRLSFLAMVLSLLIGPT 136 GLDQP + + + LH +LG S V P ++ I +L TL L+ A++L+L++G Sbjct: 55 GLDQPVWRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVP 114 Query: 137 LGVLAGLHPGGWLDRATLAVSVLLRALPSFLLGLVLVLLFSVQLGALPAAGH-------- 188 LG+ AG+ P R + S+ +LP+F +GL+L++ FSV LG LP+ G Sbjct: 115 LGLFAGMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFG 174 Query: 189 ------TDHG--GILLPALTLALGLAAVSCRVARDAMVQVRASEYFAFALTKGLTPAQAL 240 T G ++LPA+ L+L ++ R+ R + +V ++ FA KGL+PA+ + Sbjct: 175 VQWSWLTADGWRHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVV 234 Query: 241 LRHGVRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTAL 300 L + +RN P+ +G++ + V+ E+IFAWPG G ++ +I D P+I + Sbjct: 235 LMYVLRNTLIPLVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLM 294 Query: 301 VLGLLFVLFNALVDAACAFIDPRRR 325 V+ +FV N +VD +DPR 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 0.142 0.429 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: 837,299 Number of extensions: 29164 Number of successful extensions: 201 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 196 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)