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= 0034.0039.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 560 e-161 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 228 3e-61 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 194 1e-50 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 171 6e-44 gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herba... 149 2e-37 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 560 bits (1442), Expect = e-161, Method: Compositional matrix adjust. Identities = 271/305 (88%), Positives = 291/305 (95%) Query: 1 MLIYILRRFGIALCVAVTVSIVSFSLLHMSGDLATAIAGPEASATQVEAIRVQFGLDRPM 60 MLIYILRR IALCVAVTVS+VSF+LLHMSGDLA +IAGPEA+A QVE++R QFGLDRPM Sbjct: 1 MLIYILRRLAIALCVAVTVSVVSFTLLHMSGDLAVSIAGPEATAAQVESVRTQFGLDRPM 60 Query: 61 MSQYFDWLGKAVQLDFGKSFYFQGPVMEMVAERLPVTMKLGGIALLLAVAVAIPLGVLAA 120 +QY DWLG+AVQLDFGKSFYFQGPVMEM+AERLP+T KLGG ALLLAV AIPLGVLAA Sbjct: 61 ATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLAA 120 Query: 121 IYRDTWLDRVALLLAVVGQAMPSFWFGLSLILIFSVTLHWLPVAGNEGWENFVLPAIALG 180 IYRDTWLDR ALL+AVVGQAMPSFWFGL+LILIF+VTLHWLPVAGNE W++F+LPA+ALG Sbjct: 121 IYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGNESWQHFILPAVALG 180 Query: 181 YYAMPAMMRLTRAGMLEVLGSDYIRTARAKGLSKGKVIFKHALRNAVIPVVALAAVELGF 240 YYAMPAMMRLTR+GMLEVLGSDYIRTARAKGLSK +V+FKHALRNAVIPVVALAAVELGF Sbjct: 181 YYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIPVVALAAVELGF 240 Query: 241 MLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDP 300 MLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDP Sbjct: 241 MLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDP 300 Query: 301 RIRTR 305 RIRTR Sbjct: 301 RIRTR 305 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 228 bits (582), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 110/277 (39%), Positives = 179/277 (64%) Query: 29 MSGDLATAIAGPEASATQVEAIRVQFGLDRPMMSQYFDWLGKAVQLDFGKSFYFQGPVME 88 + GD A AGPEA V +R GLD+P+ Q+ ++ A + DFG S + PV E Sbjct: 30 LPGDPARLAAGPEADDKTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPVSE 89 Query: 89 MVAERLPVTMKLGGIALLLAVAVAIPLGVLAAIYRDTWLDRVALLLAVVGQAMPSFWFGL 148 ++ R T+ L +A++ AV + +G+ +A++R+ W DR+ + LAV G + P+F G+ Sbjct: 90 EISARFWPTLWLTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSLGI 149 Query: 149 SLILIFSVTLHWLPVAGNEGWENFVLPAIALGYYAMPAMMRLTRAGMLEVLGSDYIRTAR 208 L+ +FSV L WLP G++ W +++LP+I LG M R TR+ +E+L D++RTAR Sbjct: 150 LLVQVFSVKLGWLPTVGDDTWLHYILPSITLGAAVAAVMARFTRSSFIEILQEDFVRTAR 209 Query: 209 AKGLSKGKVIFKHALRNAVIPVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRN 268 AKGL++ V+ KH LRNA+IPVV + ++ GF+LGGS+++E V++ G+G+L DA+ Sbjct: 210 AKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLVDAVEMR 269 Query: 269 DYPVVQAVVLIIAMFYIGLTFLADVINALLDPRIRTR 305 DYPV+QA +L+ ++ +I + + DV+ A+++P IR + Sbjct: 270 DYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIRFK 306 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 194 bits (492), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 112/312 (35%), Positives = 184/312 (58%), Gaps = 20/312 (6%) Query: 12 ALCVAVTVSIVSFSLLHMSGDLATAIAGPEASATQVEAIRV--QFGLDRPMMSQYFDWLG 69 AL V + ++++ F LHM G+ + G + QV+ +R+ + GLD+P+ QY +L Sbjct: 12 ALMVVLLMTVIVFFGLHMIGNPVDILIGQDVD--QVDRLRIIQELGLDQPVWRQYLAFLN 69 Query: 70 KAVQLDFGKSFYFQGPVMEMVAERLPVTMKLGGIALLLAVAVAIPLGVLAAIYRDTWLDR 129 A+ + G SF + P + ++ +RLP T++L ALLLA+ V +PLG+ A + D R Sbjct: 70 GALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAGMKPDHPFSR 129 Query: 130 VALLLAVVGQAMPSFWFGLSLILIFSVTLHWLPVAGN----------------EGWENFV 173 + + ++ G ++P+FW GL LI+ FSVTL WLP G +GW + + Sbjct: 130 LVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWLTADGWRHMI 189 Query: 174 LPAIALGYYAMPAMMRLTRAGMLEVLGSDYIRTARAKGLSKGKVIFKHALRNAVIPVVAL 233 LPAI L + + ++RLTRA + EVL D+++ ARAKGLS +V+ + LRN +IP+V + Sbjct: 190 LPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLRNTLIPLVTV 249 Query: 234 AAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADV 293 +E G + +VV ES+++ G G+L D+I+ D PV+ A +++I ++ + + DV Sbjct: 250 VGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMFVTINLVVDV 309 Query: 294 INALLDPRIRTR 305 + LLDPR+R Sbjct: 310 LYKLLDPRVRVE 321 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 171 bits (434), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 92/285 (32%), Positives = 158/285 (55%), Gaps = 8/285 (2%) Query: 29 MSGDLATAIAGPEASATQVEAIRVQFGLDRPMMSQYFDWLGKAVQLDFGKSFYFQGPVME 88 + GD A G A+ V A+R+Q+GLD P +Y WLG + + G S PV + Sbjct: 34 LPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQ 93 Query: 89 MVAERLPVTMKLGGIALLLAVAVAIPLGVLAAIYRDTWLDRVALLLAVVGQAMPSFWFGL 148 M+ RLP ++ L + L++V +A+ LG+ +A+YR ++ DR + AV ++P F Sbjct: 94 MIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVAT 153 Query: 149 SLILIFSVTLHWLPVAGNEG--------WENFVLPAIALGYYAMPAMMRLTRAGMLEVLG 200 ++IF+V L WL + G + + +P + L + M R+TRA +++ L Sbjct: 154 VAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVIVAQMTRMTRAAVIDQLR 213 Query: 201 SDYIRTARAKGLSKGKVIFKHALRNAVIPVVALAAVELGFMLGGSVVIESVYSMQGLGQL 260 S Y A KG+ + +++ +HAL NA+ P+ A+ L ++LGG +++ES+++ G+ L Sbjct: 214 SSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVIIVESIFNYPGIATL 273 Query: 261 AWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDPRIRTR 305 DA++ D P+VQA +I Y+ L ADV+ + +PR++TR Sbjct: 274 MIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLKTR 318 >gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 356 Score = 149 bits (377), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 87/278 (31%), Positives = 153/278 (55%), Gaps = 22/278 (7%) Query: 46 QVEAIRVQFGLDRPMMSQYFDWLGKAVQLDFGKSFYFQGPVMEMVAERLPVTMKLGGIAL 105 ++ I+ +G D+P + +++ L + D GKSFY G V +V +LPV++ +G Sbjct: 75 RIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVKSKLPVSISIGLWTF 134 Query: 106 LLAVAVAIPLGVLAAIYRDTWLDRVALLLAVVGQAMPSFWFGLSLILIFS--VTLHWLPV 163 LL+ +++PLG+ A+ T D L +VG ++P F G+ L+++F+ + W P+ Sbjct: 135 LLSYLISVPLGIAKAVREGTRFDTATTGLVLVGYSIPGFVLGVFLLVLFAGGSFVQWFPL 194 Query: 164 AG--NEGWE-------------NFVLPAIA--LGYYAMPAMMRLTRAGMLEVLGSDYIRT 206 G ++ WE + LP A +G +A+ M LTR LE + Y+ T Sbjct: 195 RGLTSDNWESLSLMGKITDYLWHITLPVTASVIGSFAVITM--LTRNTFLEEIRKQYVLT 252 Query: 207 ARAKGLSKGKVIFKHALRNAVIPVVA-LAAVELGFMLGGSVVIESVYSMQGLGQLAWDAI 265 ARAKGLS+ +V++KH RNA+IP+V + + GS++IE+++S+ G+G LA+++ Sbjct: 253 ARAKGLSERRVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFSLDGMGLLAYESA 312 Query: 266 SRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDPRIR 303 R DYPVV + + + + + + D+ DPR++ Sbjct: 313 IRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQ 350 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 0.422 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: 872,252 Number of extensions: 34076 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 185 Number of HSP's successfully gapped: 7 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 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)