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= 0015.0084.p (356 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herba... 652 0.0 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 147 1e-36 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 122 4e-29 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 108 5e-25 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 93 3e-20 >gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 356 Score = 652 bits (1682), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/356 (97%), Positives = 351/356 (98%) Query: 1 MNIWSYILKRVLLMIPTLFGVVAITFAVIQFVPGGPVEQAMLEMKGRGGGGEASGGGAAS 60 MNIWSYI+KRVLLMIPTLFGVVAITFAVIQFVPGGPVEQAMLEMKGRGGGGEASGGGAAS Sbjct: 1 MNIWSYIVKRVLLMIPTLFGVVAITFAVIQFVPGGPVEQAMLEMKGRGGGGEASGGGAAS 60 Query: 61 GASAYRGRQGIDEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVK 120 GASAYRGRQGIDEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVK Sbjct: 61 GASAYRGRQGIDEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVK 120 Query: 121 SKFPVSISIGLWTFLLSYLISVPLGIAKAVREGSRFDTATTGLVLVGYSIPGFVLGVFLL 180 SK PVSISIGLWTFLLSYLISVPLGIAKAVREG+RFDTATTGLVLVGYSIPGFVLGVFLL Sbjct: 121 SKLPVSISIGLWTFLLSYLISVPLGIAKAVREGTRFDTATTGLVLVGYSIPGFVLGVFLL 180 Query: 181 VLFAGGSFVQWFPLRGLTSDNWASLSFTGKITDYLWHITLPVFASVIGAFAVITMLTRNT 240 VLFAGGSFVQWFPLRGLTSDNW SLS GKITDYLWHITLPV ASVIG+FAVITMLTRNT Sbjct: 181 VLFAGGSFVQWFPLRGLTSDNWESLSLMGKITDYLWHITLPVTASVIGSFAVITMLTRNT 240 Query: 241 FLEEIRKQYVLTARAKGLSERKVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFS 300 FLEEIRKQYVLTARAKGLSER+VLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFS Sbjct: 241 FLEEIRKQYVLTARAKGLSERRVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFS 300 Query: 301 LDGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQFESLAK 356 LDGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQFESLAK Sbjct: 301 LDGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQFESLAK 356 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 147 bits (372), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 98/345 (28%), Positives = 172/345 (49%), Gaps = 45/345 (13%) Query: 6 YILKRVLLMIPTLFGVVAITFAVIQFVPGGPVEQAMLEMKGRGGGGEASGGGAASGASAY 65 YIL+R+ + + VA+T +V+ F +L M G A G A+ A Sbjct: 4 YILRRLAIAL-----CVAVTVSVVSF--------TLLHMSGDLAVSIA--GPEATAA--- 45 Query: 66 RGRQGIDEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVKSKFPV 125 ++ ++ +G D+P ++ L + D GKSFY G V ++ + P+ Sbjct: 46 ---------QVESVRTQFGLDRPMATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPI 96 Query: 126 SISIGLWTFLLSYLISVPLGIAKAVREGSRFDTATTGLVLVGYSIPGFVLGVFLLVLFAG 185 + +G LL+ L ++PLG+ A+ + D A + +VG ++P F G+ L+++FA Sbjct: 97 TFKLGGSALLLAVLTAIPLGVLAAIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFA- 155 Query: 186 GSFVQWFPLRGLTSDNWASLSFTGKITDYLWHITLPVFASVIGAFAVITMLTRNTFLEEI 245 + W P+ G +++W H LP A A + LTR+ LE + Sbjct: 156 -VTLHWLPVAG--NESWQ-------------HFILPAVALGYYAMPAMMRLTRSGMLEVL 199 Query: 246 RKQYVLTARAKGLSERKVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFSLDGMG 305 Y+ TARAKGLS+ +V++KH RNA+IP+V + + GS++IE+++S+ G+G Sbjct: 200 GSDYIRTARAKGLSKSRVVFKHALRNAVIPVV-ALAAVELGFMLGGSVVIESVYSMQGLG 258 Query: 306 LLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQ 350 LA+++ R DYPVV + + + + + + D+ DPR++ Sbjct: 259 QLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINALLDPRIR 303 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 122 bits (307), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 86/281 (30%), Positives = 137/281 (48%), Gaps = 18/281 (6%) Query: 72 DEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVKSKFPVSISIGL 131 D++ +A ++ G DKP E+F D G S V + ++F ++ + + Sbjct: 44 DDKTVALVRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPVSEEISARFWPTLWLTV 103 Query: 132 WTFLLSYLISVPLGIAKAVREGSRFDTATTGLVLVGYSIPGFVLGVFLLVLFAGGSFVQW 191 + + L + +GI+ AV D L + G S P F LG+ L+ +F+ + W Sbjct: 104 VAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVK--LGW 161 Query: 192 FPLRGLTSDNWASLSFTGKITDYLWHITLPVFASVIGAFAVITMLTRNTFLEEIRKQYVL 251 P G D W H LP AV+ TR++F+E +++ +V Sbjct: 162 LPTVG--DDTWL-------------HYILPSITLGAAVAAVMARFTRSSFIEILQEDFVR 206 Query: 252 TARAKGLSERKVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFSLDGMGLLAYES 311 TARAKGL+E V+ KH RNALIP+VT F GS+L+E +F+ GMG L ++ Sbjct: 207 TARAKGLTETVVVIKHCLRNALIPVVTMMGLQF-GFLLGGSILVEVVFNWPGMGRLLVDA 265 Query: 312 AIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQFE 352 RDYPV+ + LF+L + + LV D+ Y +P ++F+ Sbjct: 266 VEMRDYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIRFK 306 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 108 bits (271), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 86/292 (29%), Positives = 144/292 (49%), Gaps = 16/292 (5%) Query: 69 QGIDEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVKSKFPVSIS 128 Q +D+ I Q G D+P ++ L G L +LG SF ++ L+ + P ++ Sbjct: 40 QDVDQVDRLRIIQELGLDQPVWRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLE 99 Query: 129 IGLWTFLLSYLISVPLGIAKAVREGSRFDTATTGLVLVGYSIPGFVLGVFLLVLFAGGSF 188 + LL+ ++ VPLG+ ++ F + G+S+P F +G+ L++ F+ Sbjct: 100 LACAALLLALVVGVPLGLFAGMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFS--VT 157 Query: 189 VQWFPL--RGLTSD----NWASLSFTGKITDYLW-HITLPVFASVIGAFAVITMLTRNTF 241 + W P RG T++ W+ L+ G W H+ LP + +++ LTR Sbjct: 158 LGWLPSGGRGQTAELFGVQWSWLTADG------WRHMILPAINLSLFKISLVIRLTRANV 211 Query: 242 LEEIRKQYVLTARAKGLSERKVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFSL 301 E + +V ARAKGLS +V+ +V RN LIPLVT F S A +++ E++F+ Sbjct: 212 REVLPMDFVKFARAKGLSPARVVLMYVLRNTLIPLVTVVGLEF-GSTIAFAVVTESIFAW 270 Query: 302 DGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQFES 353 G G L +S D PV++ L + + + + LV D+ Y DPRV+ E+ Sbjct: 271 PGAGKLILDSINALDRPVIVAYLMVIVCMFVTINLVVDVLYKLLDPRVRVEA 322 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 93.2 bits (230), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 66/282 (23%), Positives = 135/282 (47%), Gaps = 10/282 (3%) Query: 69 QGIDEQRIAEIKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVKSKFPVSIS 128 Q + +A ++ YG D P R+ L L+ + G S ++ V ++ + P S+ Sbjct: 45 QAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLM 104 Query: 129 IGLWTFLLSYLISVPLGIAKAVREGSRFDTATTGLVLVGYSIPGFVLGVFLLVLFAGGSF 188 + T L+S +++ LGI A+ GS FD A + S+P F++ +++FA Sbjct: 105 LAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFA---- 160 Query: 189 VQWFPLRGLTSDNWASLSFTGKITDYLWHITLPVFASVIGAFAVITMLTRNTFLEEIRKQ 248 LR L++ + A + T + ++ +PV A +T +TR ++++R Sbjct: 161 ---VKLRWLSALSHAGDAAT--LGAFIKAYAMPVLTLCCVIVAQMTRMTRAAVIDQLRSS 215 Query: 249 YVLTARAKGLSERKVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFSLDGMGLLA 308 Y A KG+ +++ +H NA+ P+ + ++ G +++E++F+ G+ L Sbjct: 216 YAEMALLKGVKRTRIVLRHALPNAIGPIANAV-ALSLSYLLGGVIIVESIFNYPGIATLM 274 Query: 309 YESAIRRDYPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQ 350 ++ RD P+V +F L++ L D+ + ++PR++ Sbjct: 275 IDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLK 316 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 0.143 0.439 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: 972,499 Number of extensions: 35927 Number of successful extensions: 176 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 6 Length of query: 356 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 270 Effective length of database: 1,212,660 Effective search space: 327418200 Effective search space used: 327418200 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: 131 (55.1 bits)