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= 0002.0642.p (263 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313548|ref|YP_003777640.1| nitrate/sulfonate/bicarbonate A... 443 e-126 gi|300309803|ref|YP_003773895.1| nitrate/sulfonate/bicarbonate A... 115 3e-27 gi|300312968|ref|YP_003777060.1| nitrate/sulfonate/bicarbonate A... 109 2e-25 gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 96 4e-21 gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate A... 91 1e-19 >gi|300313548|ref|YP_003777640.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 259 Score = 443 bits (1140), Expect = e-126, Method: Compositional matrix adjust. Identities = 220/252 (87%), Positives = 238/252 (94%) Query: 6 SLNQAARTMAPWILLLAILVVWQIVCSALDVSEFIFPSPMAIIEAMIEFAGPIAHHALST 65 LN+AA T+APW LLL IL VWQ +CS VS+FIFPSP +I++AM+++AGPI HALST Sbjct: 8 KLNRAATTLAPWFLLLVILGVWQFICSVWQVSDFIFPSPGSILQAMVDYAGPITEHALST 67 Query: 66 FWVTMVGFAIAVAVGVSLGFLIGSSPLLYAAAYPLMTAFNALPKAAFVPVLVVWFGIGAG 125 FWVTMVGFAIAV VGV+LGF+IGSSP+LYAAAYPLMTAFNALPKAAFVPVLVVWFGIGAG Sbjct: 68 FWVTMVGFAIAVVVGVTLGFVIGSSPMLYAAAYPLMTAFNALPKAAFVPVLVVWFGIGAG 127 Query: 126 PAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGAKRMDILLKVGMPRSLPYFFASL 185 PAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGA+RMDILLKVG+PRS+PYFFASL Sbjct: 128 PAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARRMDILLKVGLPRSMPYFFASL 187 Query: 186 KVAITLAFVGSTVSEMNASNEGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAMYELFAII 245 KVAITLAFVGSTVSEMNASN+GIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAMYELFAII Sbjct: 188 KVAITLAFVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAMYELFAII 247 Query: 246 EKRTTRWAHRGR 257 EKRTT WAHRG+ Sbjct: 248 EKRTTGWAHRGK 259 >gi|300309803|ref|YP_003773895.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 267 Score = 115 bits (289), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 118/220 (53%), Gaps = 4/220 (1%) Query: 12 RTMAPWILLLAILVVWQIVCSALDVSEFIFPSPMAIIEAMIEFAGPIAHHALSTFWVTMV 71 R AP I+ +A+L++WQIVC+ L+V ++ P+P I++ + + L T +T + Sbjct: 16 RVAAPLIIGIALLLMWQIVCTLLEVPPYLVPTPALIVKTLAADWSMLMASLLVTLKITFL 75 Query: 72 GFAIAVAVGVSLGFLIGSSPLLYAAAYPLMTAFNALPKAAFVPVLVVWFGIGAGPAILTA 131 FA+AV +GV++ F+ S + + +P P A P++++W + A Sbjct: 76 AFALAVVLGVAIAFVFVQSRFIEISLFPYAIILQVTPIVAIAPLIIIWVKDTTAALTVCA 135 Query: 132 FLISFFPIMVNIATGLATLEPELEDVLRVLGAKRMDILLKVGMPRSLPYFFASLKVAITL 191 +++ FPI+ N GL ++ P L ++ R+ A R L ++ +P +LPYFF L+++ L Sbjct: 136 TIMALFPIISNTTLGLRSVNPGLLNLFRLNKATRWQTLRRLRIPSALPYFFGGLRISSGL 195 Query: 192 AFVGSTVSEMNASNEGIG----YLLVSAGSSMKMPLAFAG 227 A +G+ V+E A G G Y ++ AG + +P FA Sbjct: 196 ALIGAVVAEFVAGTGGTGSGLAYQILQAGFQLNIPRLFAA 235 >gi|300312968|ref|YP_003777060.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 109 bits (273), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 73/263 (27%), Positives = 123/263 (46%), Gaps = 23/263 (8%) Query: 18 ILLLAILVVWQIVCSALDVSEFIFPSPMAIIEAMIE----------------------FA 55 ++L +LVVW V + + F F P+ + + + E F Sbjct: 18 MVLAIVLVVWH-VATRNPQTAFFFGEPLKVAQRIWEWFTVGSGSLEVGIGDTTFFTLSFP 76 Query: 56 GPIAHHALSTFWVTMVGFAIAVAVGVSLGFLIGSSPLLYAAAYPLMTAFNALPKAAFVPV 115 I H L T T++ F I G+++G + SP A P + A N++P+ P+ Sbjct: 77 AEIYSHLLITLTETVLAFVIGTVFGLAIGLWLALSPTASAILDPYVKAANSMPRVILAPI 136 Query: 116 LVVWFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGAKRMDILLKVGMP 175 +WFG+G + A + FF + N+ G+ + P + R+LGA +L V +P Sbjct: 137 FAMWFGLGIWSKVALAVTLVFFIVFFNVYQGVKEVSPVVLANARMLGANARQLLRTVYLP 196 Query: 176 RSLPYFFASLKVAITLAFVGSTVSEMNASNEGIGYLLVSAGSSMKMPLAFAGLVVIGAMA 235 + + F+SL +I LAFVG+ V E S G+GYL++ A + + FAG+VV+ A Sbjct: 197 SATSWVFSSLHTSIGLAFVGAVVGEYLGSARGVGYLILQAEGTFDINTVFAGIVVLTIFA 256 Query: 236 MAMYELFAIIEKRTTRWAHRGRD 258 + + +IEKR +W + + Sbjct: 257 LVLDLAVGVIEKRLMKWQPKSGE 279 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 95.5 bits (236), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 69/261 (26%), Positives = 130/261 (49%), Gaps = 22/261 (8%) Query: 19 LLLAILVV--WQIVCSALDVSEFIFPSPMAIIEAMIEFAGPIAHH--------------- 61 LL+ I+V+ W+ A ++ I PSP A++ +E+A P+ + Sbjct: 13 LLVPIIVIALWEGASRAGWINPQILPSPWAVLRKWVEYATPLKPYDPEAGSWLAWAFSGE 72 Query: 62 ----ALSTFWVTMVGFAIAVAVGVSLGFLIGSSPLLYAAAYPLMTAFNALPKAAFVPVLV 117 A+ + + + GF I + + LG L+GSS +Y + +P A++P+ + Sbjct: 73 LVMDAIGSLYRVVAGFLIGAGLALPLGLLMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAI 132 Query: 118 VWFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGAKRMDILLKVGMPRS 177 +WFG+G PA+ L +FFP+++N G+ ++ R LGA + + L+V +P + Sbjct: 133 LWFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQSTLFLRVMLPAA 192 Query: 178 LPYFFASLKVAITLAFVGSTVSEMNASNEGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMA 237 +PY + +++ I AF+ V+EM A + G+G+ ++ A AG++ IG + +A Sbjct: 193 VPYILSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLA 252 Query: 238 MYELFAIIEKRTTRWAHRGRD 258 + + + RW HRG + Sbjct: 253 IDLGMSRLNNYMLRW-HRGLE 272 >gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 278 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 64/248 (25%), Positives = 121/248 (48%), Gaps = 2/248 (0%) Query: 17 WILLLAILVVWQIVCSALDVSEFIFPSPMAIIEAMIEFA--GPIAHHALSTFWVTMVGFA 74 WI+ LA L++ + + + P P + + A G + H ++ GF Sbjct: 29 WIVPLAFLLLVEAGARLELIPARLLPPPSELAHTLWSLAQRGELLPHIAASLARVAAGFV 88 Query: 75 IAVAVGVSLGFLIGSSPLLYAAAYPLMTAFNALPKAAFVPVLVVWFGIGAGPAILTAFLI 134 I A+ V+LG L+G S A P A A+P A++P+L++W GI P ++ + Sbjct: 89 IGSALAVALGLLVGISRRAEALLEPSFQALRAIPSLAWIPLLLLWLGIDETPKVVLIAIG 148 Query: 135 SFFPIMVNIATGLATLEPELEDVLRVLGAKRMDILLKVGMPRSLPYFFASLKVAITLAFV 194 +FFP+ +N+ G+ ++ +L +V G ++ + +P SLPY FA L+ ++LA++ Sbjct: 149 AFFPVYLNLVAGIRDIDHKLIEVGTTSGLNTQALIGHILLPASLPYLFAGLRGGLSLAWM 208 Query: 195 GSTVSEMNASNEGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAMYELFAIIEKRTTRWAH 254 +E+ A+ +G+GYLL S + L A ++++ + L +E+++ W Sbjct: 209 FLVAAELIAATKGVGYLLSDGRESSRPDLVLAAILILALLGKLSDGLLRAVEQKSLGWRE 268 Query: 255 RGRDGGNR 262 R + Sbjct: 269 ARRQSSQQ 276 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 0.138 0.412 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: 802,924 Number of extensions: 33487 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 16 Length of query: 263 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 180 Effective length of database: 1,226,865 Effective search space: 220835700 Effective search space used: 220835700 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)