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= 0034.0168.p (302 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 592 e-170 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 179 2e-46 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 171 6e-44 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 115 3e-27 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 114 1e-26 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 592 bits (1526), Expect = e-170, Method: Compositional matrix adjust. Identities = 299/302 (99%), Positives = 300/302 (99%) Query: 1 VLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNL 60 VLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNL Sbjct: 17 VLTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNL 76 Query: 61 LSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAV 120 LSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAV Sbjct: 77 LSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAV 136 Query: 121 NVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHASDAATLGAFIKAYAMPVLTLCCVI 180 NVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHA DAATLGAFIKAYAMPVLTLCCVI Sbjct: 137 NVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVI 196 Query: 181 VAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLG 240 VAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLG Sbjct: 197 VAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLG 256 Query: 241 GVLIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCTGYLLLVLTADVLAIVSNPRLK 300 GV+IVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFC GYLLLVLTADVLAIVSNPRLK Sbjct: 257 GVIIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLK 316 Query: 301 TR 302 TR Sbjct: 317 TR 318 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 179 bits (455), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 102/287 (35%), Positives = 160/287 (55%), Gaps = 8/287 (2%) Query: 16 NLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPV 75 +LLPGD A+ A G A +TVA +R GLD P P ++ ++ N G+ G S+ PV Sbjct: 28 HLLPGDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPV 87 Query: 76 AQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLV 135 ++ I R +L L V + +V L +GI SA++R + DR AVS +S P F + Sbjct: 88 SEEISARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSL 147 Query: 136 ATVAVMIFAVKLRWLSALSHASDAATLGAFIKAYAMPVLTLCCVIVAQMTRMTRAAVIDQ 195 + V +F+VKL WL + D L Y +P +TL + A M R TR++ I+ Sbjct: 148 GILLVQVFSVKLGWLPTVG---DDTWL-----HYILPSITLGAAVAAVMARFTRSSFIEI 199 Query: 196 LRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVLIVESIFNYPGIA 255 L+ + A KG+ T +V++H L NA+ P+ + L +LLGG ++VE +FN+PG+ Sbjct: 200 LQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFNWPGMG 259 Query: 256 TLMIDAVTTRDMPLVQACSMIFCTGYLLLVLTADVLAIVSNPRLKTR 302 L++DAV RD P++QA ++F ++ + L DVL V NP ++ + Sbjct: 260 RLLVDAVEMRDYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIRFK 306 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 171 bits (434), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 96/285 (33%), Positives = 157/285 (55%), Gaps = 8/285 (2%) Query: 18 LPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQ 77 + GD A + G AT V ++R Q+GLD P +Y WLG + + G S PV + Sbjct: 29 MSGDLAVSIAGPEATAAQVESVRTQFGLDRPMATQYLDWLGRAVQLDFGKSFYFQGPVME 88 Query: 78 MIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVAT 137 MI RLP + L L++V A+ LG+ +A+YR ++ DRA + AV ++P F Sbjct: 89 MIAERLPITFKLGGSALLLAVLTAIPLGVLAAIYRDTWLDRAALLIAVVGQAMPSFWFGL 148 Query: 138 VAVMIFAVKLRWLSALSHASDAATLGAFIKAYAMPVLTLCCVIVAQMTRMTRAAVIDQLR 197 ++IFAV L WL + S + + +P + L + M R+TR+ +++ L Sbjct: 149 TLILIFAVTLHWLPVAGNES--------WQHFILPAVALGYYAMPAMMRLTRSGMLEVLG 200 Query: 198 SSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVLIVESIFNYPGIATL 257 S Y A KG+ ++R+V +HAL NA+ P+ A+ L ++LGG +++ES+++ G+ L Sbjct: 201 SDYIRTARAKGLSKSRVVFKHALRNAVIPVVALAAVELGFMLGGSVVIESVYSMQGLGQL 260 Query: 258 MIDAVTTRDMPLVQACSMIFCTGYLLLVLTADVLAIVSNPRLKTR 302 DA++ D P+VQA +I Y+ L ADV+ + +PR++TR Sbjct: 261 AWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDPRIRTR 305 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 115 bits (289), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 90/311 (28%), Positives = 157/311 (50%), Gaps = 13/311 (4%) Query: 2 LTLLLVSAGVFFITNLLPGDAAQTALGQAATPETVAALRL--QYGLDLPAPLRYAHWLGN 59 + +LL++ VFF +++ G+ +GQ + V LR+ + GLD P +Y +L Sbjct: 14 MVVLLMTVIVFFGLHMI-GNPVDILIGQDV--DQVDRLRIIQELGLDQPVWRQYLAFLNG 70 Query: 60 LLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRA 119 L GN G S V N P +I RLPA+L LA L+++ + + LG+F+ M F R Sbjct: 71 ALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAGMKPDHPFSRL 130 Query: 120 VNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHASDAATLG---AFIKAYA-----M 171 V +++ S+P F + + +M F+V L WL + A G +++ A + Sbjct: 131 VMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWLTADGWRHMIL 190 Query: 172 PVLTLCCVIVAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAV 231 P + L ++ + R+TRA V + L + + A KG+ R+VL + L N + P+ V Sbjct: 191 PAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLRNTLIPLVTVV 250 Query: 232 ALSLSYLLGGVLIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCTGYLLLVLTADVL 291 L + ++ ESIF +PG L++D++ D P++ A M+ ++ + L DVL Sbjct: 251 GLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMFVTINLVVDVL 310 Query: 292 AIVSNPRLKTR 302 + +PR++ Sbjct: 311 YKLLDPRVRVE 321 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 114 bits (284), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 84/292 (28%), Positives = 147/292 (50%), Gaps = 13/292 (4%) Query: 12 FFITNLLPGDAA-QTALGQAA----TPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPG 66 FF+T +LPGD A + A G+ T E A+R + GLD P + + W LL + G Sbjct: 38 FFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLDLG 97 Query: 67 MSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVS 126 +S V++ PV I +L +L L+ + +S+ + LG+ + ++ G + DRA +V Sbjct: 98 VSQVSSQPVLAEIAHQLGPTLRLSLLAMALSLLVGPTLGVLAGLHPGRWLDRATLALSVG 157 Query: 127 MVSVPEFLVATVAVMIFAVKLRWLSALSHASDAATLGAFIKAYAMPVLTLCCVIVAQMTR 186 + ++P FL+ + V++F+V+L L A H L + C R Sbjct: 158 LRALPSFLLGLILVLLFSVQLGALPAAGHGDHGGILLPALTLALGLAAVSC--------R 209 Query: 187 MTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVLIVE 246 + R A++ +S+Y AL KG+ + + RH L N P+ + + L L+ GV++VE Sbjct: 210 VARDAMVQVRQSAYFAFALTKGLSPAQALARHGLRNVAAPVTAYLGVQLVMLVEGVVLVE 269 Query: 247 SIFNYPGIATLMIDAVTTRDMPLVQACSMIFCTGYLLLVLTADVLAIVSNPR 298 +IF +PGI ++ A+ RD+P++Q +++ ++L D +PR Sbjct: 270 TIFAWPGIGHALVHAIFGRDVPMIQGTALVLGLMFVLFNALVDAACAFLDPR 321 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 0.137 0.393 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: 846,374 Number of extensions: 32942 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 223 Number of HSP's successfully gapped: 6 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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)