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= 0001.1700.p (306 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 547 e-157 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 247 7e-67 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 184 9e-48 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 183 2e-47 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 142 2e-35 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 547 bits (1409), Expect = e-157, Method: Compositional matrix adjust. Identities = 291/306 (95%), Positives = 303/306 (99%) Query: 1 MFSFVIKRLLGLIPTLLLVAVLVFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKP 60 MFSFVIKRLLGLIPTLLLVAVLVFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKP Sbjct: 1 MFSFVIKRLLGLIPTLLLVAVLVFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKP 60 Query: 61 LPEQFVNFFVKAAQGDFGKSIRSKRPVSEEIAARFWPTLWLTIVAMIWAVIFGLVIGISS 120 LPEQFVNFF+ AA+GDFG SIR+KRPVSEEI+ARFWPTLWLT+VAM+WAV+FGL+IGISS Sbjct: 61 LPEQFVNFFLNAARGDFGHSIRTKRPVSEEISARFWPTLWLTVVAMVWAVLFGLIIGISS 120 Query: 121 AVWRNKWPDRLGMTLAVSGISFPAFSLGILLVQIFSVQLGWLPTVGDDTWRHYILPSITL 180 AVWRN+WPDRLGMTLAVSGISFPAFSLGILLVQ+FSV+LGWLPTVGDDTW HYILPSITL Sbjct: 121 AVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLGWLPTVGDDTWLHYILPSITL 180 Query: 181 GAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFG 240 GAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFG Sbjct: 181 GAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFG 240 Query: 241 FLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPIIQAEILLFSLEFIFINLVVDVLYAVIN 300 FLLGGSILVEVVFNWPGMGRLLVDAVEMRDYP+IQAEILLFSLEFIFINLVVDVLYAVIN Sbjct: 241 FLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPVIQAEILLFSLEFIFINLVVDVLYAVIN 300 Query: 301 PSIRFK 306 PSIRFK Sbjct: 301 PSIRFK 306 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 247 bits (631), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 123/306 (40%), Positives = 199/306 (65%), Gaps = 1/306 (0%) Query: 1 MFSFVIKRLLGLIPTLLLVAVLVFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKP 60 M ++++RL + + V+V+ F +H+ GD A AGPEA V VR GLD+P Sbjct: 1 MLIYILRRLAIALCVAVTVSVVSFTLLHM-SGDLAVSIAGPEATAAQVESVRTQFGLDRP 59 Query: 61 LPEQFVNFFVKAAQGDFGKSIRSKRPVSEEIAARFWPTLWLTIVAMIWAVIFGLVIGISS 120 + Q++++ +A Q DFGKS + PV E IA R T L A++ AV+ + +G+ + Sbjct: 60 MATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLA 119 Query: 121 AVWRNKWPDRLGMTLAVSGISFPAFSLGILLVQIFSVQLGWLPTVGDDTWRHYILPSITL 180 A++R+ W DR + +AV G + P+F G+ L+ IF+V L WLP G+++W+H+ILP++ L Sbjct: 120 AIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGNESWQHFILPAVAL 179 Query: 181 GAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFG 240 G M R TRS +E+L D++RTARAKGL+++ VV KH LRNA+IPVV + ++ G Sbjct: 180 GYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIPVVALAAVELG 239 Query: 241 FLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPIIQAEILLFSLEFIFINLVVDVLYAVIN 300 F+LGGS+++E V++ G+G+L DA+ DYP++QA +L+ ++ +I + + DV+ A+++ Sbjct: 240 FMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLD 299 Query: 301 PSIRFK 306 P IR + Sbjct: 300 PRIRTR 305 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 184 bits (466), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 104/292 (35%), Positives = 163/292 (55%), Gaps = 8/292 (2%) Query: 23 VFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFVKAAQGDFGKSIR 82 VF +LLPGD A+ A G A +TVA +R GLD P P ++ ++ G+ G S+ Sbjct: 27 VFFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLV 86 Query: 83 SKRPVSEEIAARFWPTLWLTIVAMIWAVIFGLVIGISSAVWRNKWPDRLGMTLAVSGISF 142 + PV++ I R +L L V + +V L +GI SA++R + DR AVS +S Sbjct: 87 NNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSV 146 Query: 143 PAFSLGILLVQIFSVQLGWLPTV---GDDTW-----RHYILPSITLGAAVAAVMARFTRS 194 P F + + V IF+V+L WL + GD + Y +P +TL + A M R TR+ Sbjct: 147 PEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVIVAQMTRMTRA 206 Query: 195 SFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFN 254 + I+ L+ + A KG+ T +V++H L NA+ P+ + L +LLGG I+VE +FN Sbjct: 207 AVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVIIVESIFN 266 Query: 255 WPGMGRLLVDAVEMRDYPIIQAEILLFSLEFIFINLVVDVLYAVINPSIRFK 306 +PG+ L++DAV RD P++QA ++F ++ + L DVL V NP ++ + Sbjct: 267 YPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLKTR 318 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 183 bits (464), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 111/307 (36%), Positives = 179/307 (58%), Gaps = 17/307 (5%) Query: 16 LLLVAVLVFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFVKAAQG 75 +LL+ V+VF +H++ G+P + G + D + +LGLD+P+ Q++ F A G Sbjct: 16 VLLMTVIVFFGLHMI-GNPVDILIGQDVDQVDRLRIIQELGLDQPVWRQYLAFLNGALHG 74 Query: 76 DFGKSIRSKRPVSEEIAARFWPTLWLTIVAMIWAVIFGLVIGISSAVWRNKWPDRLGMTL 135 + G S P I R TL L A++ A++ G+ +G+ + + + RL MT Sbjct: 75 NLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAGMKPDHPFSRLVMTT 134 Query: 136 AVSGISFPAFSLGILLVQIFSVQLGWLPTVGD----------------DTWRHYILPSIT 179 ++ G S P F +G++L+ FSV LGWLP+ G D WRH ILP+I Sbjct: 135 SIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWLTADGWRHMILPAIN 194 Query: 180 LGAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQF 239 L +++ R TR++ E+L DFV+ ARAKGL+ VV+ + LRN LIP+VT++GL+F Sbjct: 195 LSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLRNTLIPLVTVVGLEF 254 Query: 240 GFLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPIIQAEILLFSLEFIFINLVVDVLYAVI 299 G + +++ E +F WPG G+L++D++ D P+I A +++ F+ INLVVDVLY ++ Sbjct: 255 GSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMFVTINLVVDVLYKLL 314 Query: 300 NPSIRFK 306 +P +R + Sbjct: 315 DPRVRVE 321 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 142 bits (359), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 105/290 (36%), Positives = 158/290 (54%), Gaps = 5/290 (1%) Query: 20 AVLVFLFVHLLPGDPA-RLAAGPEADD----KTVALVRADLGLDKPLPEQFVNFFVKAAQ 74 L F +LPGD A R+AAG D + VR +LGLD+P ++ + Sbjct: 34 GTLCFFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLH 93 Query: 75 GDFGKSIRSKRPVSEEIAARFWPTLWLTIVAMIWAVIFGLVIGISSAVWRNKWPDRLGMT 134 D G S S +PV EIA + PTL L+++AM +++ G +G+ + + +W DR + Sbjct: 94 LDLGVSQVSSQPVLAEIAHQLGPTLRLSLLAMALSLLVGPTLGVLAGLHPGRWLDRATLA 153 Query: 135 LAVSGISFPAFSLGILLVQIFSVQLGWLPTVGDDTWRHYILPSITLGAAVAAVMARFTRS 194 L+V + P+F LG++LV +FSVQLG LP G +LP++TL +AAV R R Sbjct: 154 LSVGLRALPSFLLGLILVLLFSVQLGALPAAGHGDHGGILLPALTLALGLAAVSCRVARD 213 Query: 195 SFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFN 254 + +++ Q + A KGL+ + +H LRN PV +G+Q L+ G +LVE +F Sbjct: 214 AMVQVRQSAYFAFALTKGLSPAQALARHGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFA 273 Query: 255 WPGMGRLLVDAVEMRDYPIIQAEILLFSLEFIFINLVVDVLYAVINPSIR 304 WPG+G LV A+ RD P+IQ L+ L F+ N +VD A ++P R Sbjct: 274 WPGIGHALVHAIFGRDVPMIQGTALVLGLMFVLFNALVDAACAFLDPRGR 323 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 0.144 0.442 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: 868,486 Number of extensions: 34155 Number of successful extensions: 174 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 167 Number of HSP's successfully gapped: 6 Length of query: 306 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 221 Effective length of database: 1,217,395 Effective search space: 269044295 Effective search space used: 269044295 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: 130 (54.7 bits)