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= 0031.0065.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313309|ref|YP_003777401.1| sugar ABC transporter permease ... 620 e-179 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 78 1e-15 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 76 4e-15 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 66 4e-12 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 66 5e-12 >gi|300313309|ref|YP_003777401.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 331 Score = 620 bits (1598), Expect = e-179, Method: Compositional matrix adjust. Identities = 325/331 (98%), Positives = 325/331 (98%), Gaps = 5/331 (1%) Query: 1 MSATSAATVTAQRRMGVLSRHEIQTLLLPMATLAVVLAPIFWINPNTMSYFGLGLLLNLA 60 MSATSAATVTAQRRMGVLSRHEIQTLLLPMATLAVVLAPIFWINPNTMSYFGLGLLLNLA Sbjct: 1 MSATSAATVTAQRRMGVLSRHEIQTLLLPMATLAVVLAPIFWINPNTMSYFGLGLLLNLA 60 Query: 61 VPMILASMAQLCIIAVNDLDLSIGAFISLVSCIAVTWLPERPVLGVAALVACVLLYAAIG 120 VPMILASMAQLCIIAVNDLDLSIGAFISLVSCIAVTWLPERPVLGVAALVACVLLYAAIG Sbjct: 61 VPMILASMAQLCIIAVNDLDLSIGAFISLVSCIAVTWLPERPVLGVAALVACVLLYAAIG 120 Query: 121 ALVELFDLPSIVVTLGLSFVWGG-----WALILLPMPGGATPQWIQDVMNLAIPVIPTPI 175 ALVELFDLPSIVVTLGLSFVWGG WALILLPMPGGATPQWIQDVMNLAIPVIPTPI Sbjct: 121 ALVELFDLPSIVVTLGLSFVWGGFVWGGWALILLPMPGGATPQWIQDVMNLAIPVIPTPI 180 Query: 176 VYAALIALCAHWFLMRSSTGVRLRGAGGNPKAIVRSGGSVVRAKALMYGLAGVLGILSAL 235 VYA LIALCAHWFLMRSSTGVRLRGAGGNPKAIVRSGGSVVRAKALMYGLAGVLGILSAL Sbjct: 181 VYAVLIALCAHWFLMRSSTGVRLRGAGGNPKAIVRSGGSVVRAKALMYGLAGVLGILSAL 240 Query: 236 TLVGITTSADANIAQRYTLISIAAVILGGGSFIGGKVSPIGATLGAITLGIAASFLSFLN 295 TLVGITTSADANIAQRYTLISIAAVILGGGSFIGGKVSPIGATLGAITLGIAASFLSFLN Sbjct: 241 TLVGITTSADANIAQRYTLISIAAVILGGGSFIGGKVSPIGATLGAITLGIAASFLSFLN 300 Query: 296 IAPKWQIGLQGAILIIVLSMRILLSARGERQ 326 IAPKWQIGLQGAILIIVLSMRILLSARGERQ Sbjct: 301 IAPKWQIGLQGAILIIVLSMRILLSARGERQ 331 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 95/304 (31%), Positives = 147/304 (48%), Gaps = 34/304 (11%) Query: 38 APIFWINPNTMSYFGLGLLLNLAVPMILASMAQLCIIAVNDLDLSIGAFISL---VSCIA 94 AP+F ++ +M LL + A+ ++LA +AQ+ +I +DLS+ + ++L +S + Sbjct: 46 APVF-LSAQSMD----NLLTDSAITIMLA-LAQMLVILTRGIDLSVASNLALSGMMSALL 99 Query: 95 VTWLPERPVLGVAALVACV---LLYAAIGALVELFDLPSIVVTLGLSFVWGGWALILLPM 151 P PV GV L+A + +L G L+ +LP IVVTLG V+ G +L Sbjct: 100 AMHFPALPV-GVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVL--- 155 Query: 152 PGGATPQWIQDVMNLAIPVIPTPI---------VYAALIALCAHWFLMRSSTGVRLRGAG 202 GGA W+ N+ I P+ V+ +A+ A WFL R + R A Sbjct: 156 SGGA---WVSS-RNMPADFIAFPLARLGGLTHLVWLGALAVVAIWFLARHTRFGRDLYAI 211 Query: 203 GNPKAIVRSGGSVVRAKAL-MYGLAGVLGILSALTLVGITTSADANIAQRYTLISIAAVI 261 GN A G R + L YGL+G + L+ V A IA + L IAA + Sbjct: 212 GNDPAAAAYVGIASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACV 271 Query: 262 LGGGSFIGGKVSPIGATLGAITLGIAASFLSFLNIAPKWQIGLQGAILIIVLSMRILLSA 321 +GG S GG GA LGA+ L + + L + I+P WQ L G +++ ++L+A Sbjct: 272 IGGVSIAGGVGQVSGAVLGALFLSVINNALPIMRISPFWQSALTGLVILCA----VVLNA 327 Query: 322 RGER 325 RG++ Sbjct: 328 RGKQ 331 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 75.9 bits (185), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 76/248 (30%), Positives = 120/248 (48%), Gaps = 9/248 (3%) Query: 73 IIAVNDLDLSIGAFISLVSCIAVTWLPERPVLGVAALVACVLLYAAIG----ALVELFDL 128 +I +DLS+GA ++L I+ + + AL+ V L IG ALV + Sbjct: 76 VILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLATCIGLLNGALVAWGRM 135 Query: 129 PSIVVTLGLSFVWGGWALIL---LPMPGGATPQWIQDVMNLAIPVIPTPIVYAALIALCA 185 P+I+VTL V G LI P+ G P WI I ++P P++ ++ A Sbjct: 136 PAIIVTLATMGVARGVGLIYSGGYPISG--LPGWISWFGVGRIGMVPVPVILMLIVYALA 193 Query: 186 HWFLMRSSTGVRLRGAGGNPKAIVRSGGSVVRAKALMYGLAGVLGILSALTLVGITTSAD 245 L R++ G + GGN A SG R K +Y ++G L+A+ L G S Sbjct: 194 WLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGLAAIILTGRLMSGQ 253 Query: 246 ANIAQRYTLISIAAVILGGGSFIGGKVSPIGATLGAITLGIAASFLSFLNIAPKWQIGLQ 305 N + L +IAAV+LGG + GG+ +G +GA+ LGI + L+ + I P Q ++ Sbjct: 254 PNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLNLMGINPYLQDIIR 313 Query: 306 GAILIIVL 313 G I+++ + Sbjct: 314 GVIILLAI 321 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 66.2 bits (160), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 93/297 (31%), Positives = 135/297 (45%), Gaps = 21/297 (7%) Query: 36 VLAPIFWINPNTM--SYFGLGLLLNLAVPMILASMAQLCIIAVNDLDLSIGAFISLVS-C 92 +L P F+ +P + S F +A+PM L +I ++D+S+ A I+L S Sbjct: 52 LLLPHFF-DPYNLADSTFNFSEKAMIALPMAL-------LIICREIDISVSAIIALASVA 103 Query: 93 IAVTWLPERPVLG-----VAALVACVLLYAAIGALVELFDLPSIVVTLG-LSFVWGGWAL 146 + + P LG +A AC LL GALV LPSIVVT+G +S G ++ Sbjct: 104 MGLANQAGVPPLGLLLVAIATGTACGLLN---GALVTRLGLPSIVVTIGSMSLFRGLASV 160 Query: 147 ILLPMPGGATPQWIQD-VMNLAIPVIPTPIVYAALIALCAHWFLMRSSTGVRLRGAGGNP 205 +L P+ + D V+P P V L A+ L + G RL G NP Sbjct: 161 VLGDQAFTQYPEVLGDWGQGYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNNP 220 Query: 206 KAIVRSGGSVVRAKALMYGLAGVLGILSALTLVGITTSADANIAQRYTLISIAAVILGGG 265 A SG +V R + ++ L G + L+A L G S NIA + L I VILGG Sbjct: 221 VAARFSGVAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTRPNIAMGWELEIITVVILGGV 280 Query: 266 SFIGGKVSPIGATLGAITLGIAASFLSFLNIAPKWQIGLQGAILIIVLSMRILLSAR 322 S GG S G L + +G+ L+ NI + GA+L+ +++ LL R Sbjct: 281 SIAGGTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPRLLRGR 337 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 91/340 (26%), Positives = 158/340 (46%), Gaps = 25/340 (7%) Query: 2 SATSAATVTAQRRMGVLSRHEIQTLLLPMATLAVVLAPIFWINPNTMSYFGL-GLLLNLA 60 S T A T +AQ L + LL A+L +++ + +PN M L +L + A Sbjct: 12 STTMANTASAQGLRARLFNPAARQKLLAFASLLLMILFFSFASPNFMEVDNLVSILQSTA 71 Query: 61 VPMILASMAQLCIIAVNDLDLSIGAFISLVSCIA----VTWLPERPVLGVAALVACVLLY 116 V +LA +A +I + +DLS+G ++ + +A W P LG+AA + L Sbjct: 72 VNGVLA-IACTYVIITSGIDLSVGTMMTFCAVMAGVVLTNWGMPLP-LGIAAAIFFGALS 129 Query: 117 AAI-GALVELFDLPSIVVTLGLSFVWGGWALILLPMPGGATPQWIQDVMNLA-------- 167 I G ++ +P + TLG+ + G +L++ G P + D + Sbjct: 130 GWISGMVIAKLKVPPFIATLGMMMLLKGLSLVI----SGTRPIYFNDTEGFSAIAQDSLI 185 Query: 168 ---IPVIPTP--IVYAALIALCAHWFLMRSSTGVRLRGAGGNPKAIVRSGGSVVRAKALM 222 IP +P P ++ L+A+ A L ++ G G N +A+ SG V K + Sbjct: 186 GDLIPSLPIPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAV 245 Query: 223 YGLAGVLGILSALTLVGITTSADANIAQRYTLISIAAVILGGGSFIGGKVSPIGATLGAI 282 Y +G + ++ L + SA + Q Y L +IAAV++GG S GG + +G +GA Sbjct: 246 YTFSGAICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAF 305 Query: 283 TLGIAASFLSFLNIAPKWQIGLQGAILIIVLSMRILLSAR 322 + + + L +++A +WQ + G I+I+ + + IL R Sbjct: 306 IMSVLVNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRR 345 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 0.140 0.418 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: 995,638 Number of extensions: 42980 Number of successful extensions: 290 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 270 Number of HSP's successfully gapped: 15 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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)