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= 0015.0526.p (256 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... 502 e-143 gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 221 3e-59 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 180 9e-47 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 160 1e-40 gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herba... 151 6e-38 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 502 bits (1292), Expect = e-143, Method: Compositional matrix adjust. Identities = 247/256 (96%), Positives = 253/256 (98%) Query: 1 VRTQFGLDRPLTTQYVDWLGRAVQLDFGKSFYFQGPVMEMISERLPITIKLGGSALLLAI 60 VRTQFGLDRP+ TQY+DWLGRAVQLDFGKSFYFQGPVMEMI+ERLPIT KLGGSALLLA+ Sbjct: 50 VRTQFGLDRPMATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAV 109 Query: 61 LTAIPLGVLAALYRDTWLDRTALLIAVVGQAMPSFWFGLTLILLFAVTLHWLPVAGNESW 120 LTAIPLGVLAA+YRDTWLDR ALLIAVVGQAMPSFWFGLTLIL+FAVTLHWLPVAGNESW Sbjct: 110 LTAIPLGVLAAIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGNESW 169 Query: 121 QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIP 180 QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIP Sbjct: 170 QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIP 229 Query: 181 VVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTF 240 VVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTF Sbjct: 230 VVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTF 289 Query: 241 LADVINALLDPRIRTR 256 LADVINALLDPRIRTR Sbjct: 290 LADVINALLDPRIRTR 305 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 221 bits (564), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 107/256 (41%), Positives = 171/256 (66%) Query: 1 VRTQFGLDRPLTTQYVDWLGRAVQLDFGKSFYFQGPVMEMISERLPITIKLGGSALLLAI 60 VR GLD+PL Q+V++ A + DFG S + PV E IS R T+ L A++ A+ Sbjct: 51 VRADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPVSEEISARFWPTLWLTVVAMVWAV 110 Query: 61 LTAIPLGVLAALYRDTWLDRTALLIAVVGQAMPSFWFGLTLILLFAVTLHWLPVAGNESW 120 L + +G+ +A++R+ W DR + +AV G + P+F G+ L+ +F+V L WLP G+++W Sbjct: 111 LFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLGWLPTVGDDTW 170 Query: 121 QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIP 180 H+ILP++ LG M R TRS +E+L D++RTARAKGL+++ VV KH LRNA+IP Sbjct: 171 LHYILPSITLGAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIP 230 Query: 181 VVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTF 240 VV + ++ GF+LGGS+++E V++ G+G+L DA+ DYPV+QA +L+ ++ +I + Sbjct: 231 VVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPVIQAEILLFSLEFIFINL 290 Query: 241 LADVINALLDPRIRTR 256 + DV+ A+++P IR + Sbjct: 291 VVDVLYAVINPSIRFK 306 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 180 bits (457), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 100/269 (37%), Positives = 163/269 (60%), Gaps = 16/269 (5%) Query: 4 QFGLDRPLTTQYVDWLGRAVQLDFGKSFYFQGPVMEMISERLPITIKLGGSALLLAILTA 63 + GLD+P+ QY+ +L A+ + G SF + P + +I +RLP T++L +ALLLA++ Sbjct: 53 ELGLDQPVWRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVG 112 Query: 64 IPLGVLAALYRDTWLDRTALLIAVVGQAMPSFWFGLTLILLFAVTLHWLPVAGN------ 117 +PLG+ A + D R + ++ G ++P+FW GL LI+ F+VTL WLP G Sbjct: 113 VPLGLFAGMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAEL 172 Query: 118 ----------ESWQHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSR 167 + W+H ILPA+ L + + ++RLTR+ + EVL D+++ ARAKGLS +R Sbjct: 173 FGVQWSWLTADGWRHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPAR 232 Query: 168 VVFKHALRNAVIPVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAV 227 VV + LRN +IP+V + +E G + +VV ES+++ G G+L D+I+ D PV+ A Sbjct: 233 VVLMYVLRNTLIPLVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAY 292 Query: 228 VLIIAMFYIGLTFLADVINALLDPRIRTR 256 +++I ++ + + DV+ LLDPR+R Sbjct: 293 LMVIVCMFVTINLVVDVLYKLLDPRVRVE 321 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 160 bits (405), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 87/264 (32%), Positives = 149/264 (56%), Gaps = 8/264 (3%) Query: 1 VRTQFGLDRPLTTQYVDWLGRAVQLDFGKSFYFQGPVMEMISERLPITIKLGGSALLLAI 60 +R Q+GLD P +Y WLG + + G S PV +MI RLP ++ L L+++ Sbjct: 55 LRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSV 114 Query: 61 LTAIPLGVLAALYRDTWLDRTALLIAVVGQAMPSFWFGLTLILLFAVTLHWLPV---AGN 117 A+ LG+ +A+YR ++ DR + AV ++P F +++FAV L WL AG+ Sbjct: 115 PLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWLSALSHAGD 174 Query: 118 ESW-----QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKH 172 + + + +P + L + M R+TR+ +++ L S Y A KG+ ++R+V +H Sbjct: 175 AATLGAFIKAYAMPVLTLCCVIVAQMTRMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRH 234 Query: 173 ALRNAVIPVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIA 232 AL NA+ P+ A+ L ++LGG +++ES+++ G+ L DA++ D P+VQA +I Sbjct: 235 ALPNAIGPIANAVALSLSYLLGGVIIVESIFNYPGIATLMIDAVTTRDMPLVQACSMIFC 294 Query: 233 MFYIGLTFLADVINALLDPRIRTR 256 Y+ L ADV+ + +PR++TR Sbjct: 295 AGYLLLVLTADVLAIVSNPRLKTR 318 >gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 356 Score = 151 bits (381), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 151/274 (55%), Gaps = 22/274 (8%) Query: 1 VRTQFGLDRPLTTQYVDWLGRAVQLDFGKSFYFQGPVMEMISERLPITIKLGGSALLLAI 60 ++ +G D+P ++ L + D GKSFY G V ++ +LP++I +G LL+ Sbjct: 79 IKQLYGFDKPPVERFWTMLKGFLTFDLGKSFYHHGDVWTLVKSKLPVSISIGLWTFLLSY 138 Query: 61 LTAIPLGVLAALYRDTWLDRTALLIAVVGQAMPSFWFGLTLILLFA--VTLHWLPVAG-- 116 L ++PLG+ A+ T D + +VG ++P F G+ L++LFA + W P+ G Sbjct: 139 LISVPLGIAKAVREGTRFDTATTGLVLVGYSIPGFVLGVFLLVLFAGGSFVQWFPLRGLT 198 Query: 117 NESWQ-------------HFILPAVA--LGYYAMPAMMRLTRSGMLEVLGSDYIRTARAK 161 +++W+ H LP A +G +A+ M LTR+ LE + Y+ TARAK Sbjct: 199 SDNWESLSLMGKITDYLWHITLPVTASVIGSFAVITM--LTRNTFLEEIRKQYVLTARAK 256 Query: 162 GLSKSRVVFKHALRNAVIPVV-ALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRND 220 GLS+ RV++KH RNA+IP+V + + GS++IE+++S+ G+G LA+++ R D Sbjct: 257 GLSERRVLYKHVFRNALIPLVTGFPSAFIASFFAGSLLIETLFSLDGMGLLAYESAIRRD 316 Query: 221 YPVVQAVVLIIAMFYIGLTFLADVINALLDPRIR 254 YPVV + + + + + + D+ DPR++ Sbjct: 317 YPVVMGTLYLFTLIGLVVKLVGDLCYVWADPRVQ 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 0.328 0.142 0.428 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: 749,307 Number of extensions: 28918 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 6 Length of query: 256 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 173 Effective length of database: 1,226,865 Effective search space: 212247645 Effective search space used: 212247645 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: 129 (54.3 bits)