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= 0002.0039.p (261 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 444 e-126 gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporte... 147 1e-36 gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate A... 137 7e-34 gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate A... 122 2e-29 gi|300311644|ref|YP_003775736.1| taurine ABC transporter permeas... 114 7e-27 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 444 bits (1142), Expect = e-126, Method: Compositional matrix adjust. Identities = 239/261 (91%), Positives = 248/261 (95%) Query: 1 LLVPVAVIAIWQAASSLGWINPLVLPSPWAVVHKWFEYAAPLKPYDPAEGNWLAWLFSGE 60 LLVP+ VIA+W+ AS GWINP +LPSPWAV+ KW EYA PLKPYDP G+WLAW FSGE Sbjct: 13 LLVPIIVIALWEGASRAGWINPQILPSPWAVLRKWVEYATPLKPYDPEAGSWLAWAFSGE 72 Query: 61 LLMDAIGSLYRVVVGFLIGAGLALPLGLLMGSSQRVYGLMNLTVQVIRPIPPIAYIPLAI 120 L+MDAIGSLYRVV GFLIGAGLALPLGLLMGSSQR+YGLMNLTVQVIRPIPPIAYIPLAI Sbjct: 73 LVMDAIGSLYRVVAGFLIGAGLALPLGLLMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAI 132 Query: 121 LWFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQRTLFVRVMLPAA 180 LWFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQ TLF+RVMLPAA Sbjct: 133 LWFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQSTLFLRVMLPAA 192 Query: 181 VPYILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLA 240 VPYILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLA Sbjct: 193 VPYILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLA 252 Query: 241 IDLGMSRLNNYMLRWHRGLEN 261 IDLGMSRLNNYMLRWHRGLEN Sbjct: 253 IDLGMSRLNNYMLRWHRGLEN 273 >gi|300310979|ref|YP_003775071.1| alkanesulfonates ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 279 Score = 147 bits (370), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 97/250 (38%), Positives = 141/250 (56%), Gaps = 17/250 (6%) Query: 11 WQAASSLGWINPLVLPSPWAVVHKWFEYAAPLKPYDPAEGNWLAWLFSGELLMDAIGSLY 70 W+ A+ GW++ +LP P AV+ +E +A SGEL S Sbjct: 47 WEVAAQAGWLSSRILPEPLAVLKAAWELSA-----------------SGELWRHLAVSSG 89 Query: 71 RVVVGFLIGAGLALPLGLLMGSSQRVYGLMNLTVQVIRPIPPIAYIPLAILWFGLGNPPA 130 R GF +GAGL L LGLL GS + L++ T+Q++R IP +A IPL ILWFG+ Sbjct: 90 RAASGFAVGAGLGLILGLLSGSLRSAELLLDTTLQMVRNIPALALIPLVILWFGIDETAK 149 Query: 131 LFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQRTLFVRVMLPAAVPYILSGVRI 190 LFL+S+G FFPV +NT G+R VD + A++ G S L+ V+LP A+P IL G+R Sbjct: 150 LFLVSVGVFFPVYLNTFHGIRSVDQGLIEMAKSYGLSGWPLYRDVILPGALPAILVGLRF 209 Query: 191 GIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLAIDLGMSRLNN 250 +G ++++IVAE I+ G+G+ M ARE+ +D ++ G++ LLG D L Sbjct: 210 ALGLVWVLLIVAETISAQAGIGYMTMNAREFLQTDVVLVGILLYALLGKLADTAARWLER 269 Query: 251 YMLRWHRGLE 260 + LRWH G + Sbjct: 270 FWLRWHPGYQ 279 >gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 278 Score = 137 bits (346), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 78/224 (34%), Positives = 127/224 (56%), Gaps = 17/224 (7%) Query: 2 LVPVAVIAIWQAASSLGWINPLVLPSPWAVVHKWFEYAAPLKPYDPAEGNWLAWLFSGEL 61 +VP+A + + +A + L I +LP P + H + A GEL Sbjct: 30 IVPLAFLLLVEAGARLELIPARLLPPPSELAHTLWSLAQ-----------------RGEL 72 Query: 62 LMDAIGSLYRVVVGFLIGAGLALPLGLLMGSSQRVYGLMNLTVQVIRPIPPIAYIPLAIL 121 L SL RV GF+IG+ LA+ LGLL+G S+R L+ + Q +R IP +A+IPL +L Sbjct: 73 LPHIAASLARVAAGFVIGSALAVALGLLVGISRRAEALLEPSFQALRAIPSLAWIPLLLL 132 Query: 122 WFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQRTLFVRVMLPAAV 181 W G+ P + LI++GAFFPV +N +AG+R +D + G + + L ++LPA++ Sbjct: 133 WLGIDETPKVVLIAIGAFFPVYLNLVAGIRDIDHKLIEVGTTSGLNTQALIGHILLPASL 192 Query: 182 PYILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSD 225 PY+ +G+R G+ A++ ++ AE+IA + G+G+ + + RE D Sbjct: 193 PYLFAGLRGGLSLAWMFLVAAELIAATKGVGYLLSDGRESSRPD 236 >gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 256 Score = 122 bits (307), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 68/185 (36%), Positives = 111/185 (60%) Query: 58 SGELLMDAIGSLYRVVVGFLIGAGLALPLGLLMGSSQRVYGLMNLTVQVIRPIPPIAYIP 117 G L + S R++ G+ G + +PLG+ MG + V L++ ++ R IPPIA++ Sbjct: 57 DGTLQQSVLASSGRILAGWGAGVVIGVPLGIFMGRFETVRQLLDPYIEFFRFIPPIAFVT 116 Query: 118 LAILWFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQRTLFVRVML 177 LA++W G G + LI F V +NTIAGV+ V+ + LRAA +LGA Q + V+L Sbjct: 117 LAVIWLGPGELSKIALIFYTTVFIVTLNTIAGVQAVNPLRLRAAASLGAGQWKILSTVIL 176 Query: 178 PAAVPYILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLL 237 P+ VP++++G RI +G +F+ V+ AE+++ GLG I AR + ++ + G+I +G+L Sbjct: 177 PSTVPFMVTGARIAMGNSFLTVVSAEIVSAREGLGALIWTARNFSRTEWVFVGIIALGIL 236 Query: 238 GLAID 242 G D Sbjct: 237 GYLFD 241 >gi|300311644|ref|YP_003775736.1| taurine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 114 bits (285), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 79/252 (31%), Positives = 136/252 (53%), Gaps = 13/252 (5%) Query: 5 VAVIAIWQAASSLGWINPLVLPSPWAVVHKWFEYAAPLKPYDPAEGNWLAWLFSGELLMD 64 + ++A+W + GW+ L LP+P V+ A+ W + L Sbjct: 52 IVILALWWLIAQTGWVPHLFLPTPAEVLKV-------------AQSIWEDGYANATLAEH 98 Query: 65 AIGSLYRVVVGFLIGAGLALPLGLLMGSSQRVYGLMNLTVQVIRPIPPIAYIPLAILWFG 124 SL R++ +I L +P+GLLMG ++ V G+++ ++ P+PP+AY+PL I+W G Sbjct: 99 VGASLLRILTAGVIAVLLGIPVGLLMGLNRWVKGVLDTPIEFYWPLPPLAYLPLMIIWLG 158 Query: 125 LGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQRTLFVRVMLPAAVPYI 184 +G + L++L F PV+++ AGVR + + AA +LGA++ L V+LP+A+P I Sbjct: 159 IGEASKITLLTLAMFAPVVLSAQAGVRSLPQERVNAALSLGATRWQLLTEVVLPSALPEI 218 Query: 185 LSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLAIDLG 244 L+G+RI +G + ++ AE+IA + G+G+ IM A + +D + G+ I A G Sbjct: 219 LTGIRIALGVGWSTLVAAELIASNRGIGYMIMSASHFLATDAVFVGIALIATCAFAFSYG 278 Query: 245 MSRLNNYMLRWH 256 M L ++ W Sbjct: 279 MRLLERALVPWK 290 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 0.144 0.456 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: 774,199 Number of extensions: 30486 Number of successful extensions: 175 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 17 Length of query: 261 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 178 Effective length of database: 1,226,865 Effective search space: 218381970 Effective search space used: 218381970 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: 129 (54.3 bits)