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= 0001.4121.p (259 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... 483 e-138 gi|300309803|ref|YP_003773895.1| nitrate/sulfonate/bicarbonate A... 110 1e-25 gi|300312968|ref|YP_003777060.1| nitrate/sulfonate/bicarbonate A... 107 1e-24 gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 92 6e-20 gi|300312684|ref|YP_003776776.1| nitrate/sulfonate/bicarbonate A... 91 8e-20 >gi|300313548|ref|YP_003777640.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 259 Score = 483 bits (1243), Expect = e-138, Method: Compositional matrix adjust. Identities = 243/259 (93%), Positives = 251/259 (96%) Query: 1 MQTSSNGKLNRAATTLAPWFLLIAILGVWQFICSVWEVSDFIFPSPASILQAMVEYAGPI 60 M+T GKLNRAATTLAPWFLL+ ILGVWQFICSVW+VSDFIFPSP SILQAMV+YAGPI Sbjct: 1 MKTPFQGKLNRAATTLAPWFLLLVILGVWQFICSVWQVSDFIFPSPGSILQAMVDYAGPI 60 Query: 61 TQHALSTFWVTMVGFAIAVGVGVTLGLVIGSSPMLYAAAYPLMTAFNALPKAAFVPVLVV 120 T+HALSTFWVTMVGFAIAV VGVTLG VIGSSPMLYAAAYPLMTAFNALPKAAFVPVLVV Sbjct: 61 TEHALSTFWVTMVGFAIAVVVGVTLGFVIGSSPMLYAAAYPLMTAFNALPKAAFVPVLVV 120 Query: 121 WFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARRLDILWKVGLPRAL 180 WFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARR+DIL KVGLPR++ Sbjct: 121 WFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARRMDILLKVGLPRSM 180 Query: 181 PYFFASLKVAITLAFVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAM 240 PYFFASLKVAITLAFVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAM Sbjct: 181 PYFFASLKVAITLAFVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAM 240 Query: 241 YELFAIIEKRTTGWAHRGK 259 YELFAIIEKRTTGWAHRGK Sbjct: 241 YELFAIIEKRTTGWAHRGK 259 >gi|300309803|ref|YP_003773895.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 267 Score = 110 bits (275), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 122/235 (51%), Gaps = 6/235 (2%) Query: 1 MQTSSNGKLNRAA--TTLAPWFLLIAILGVWQFICSVWEVSDFIFPSPASILQAMVEYAG 58 M+ +++ +NR AP + IA+L +WQ +C++ EV ++ P+PA I++ + Sbjct: 1 MKPNTDPLVNRPGFWRVAAPLIIGIALLLMWQIVCTLLEVPPYLVPTPALIVKTLAADWS 60 Query: 59 PITQHALSTFWVTMVGFAIAVGVGVTLGLVIGSSPMLYAAAYPLMTAFNALPKAAFVPVL 118 + L T +T + FA+AV +GV + V S + + +P P A P++ Sbjct: 61 MLMASLLVTLKITFLAFALAVVLGVAIAFVFVQSRFIEISLFPYAIILQVTPIVAIAPLI 120 Query: 119 VVWFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARRLDILWKVGLPR 178 ++W + A +++ FPI+ N GL ++ P L ++ R+ A R L ++ +P Sbjct: 121 IIWVKDTTAALTVCATIMALFPIISNTTLGLRSVNPGLLNLFRLNKATRWQTLRRLRIPS 180 Query: 179 ALPYFFASLKVAITLAFVGSTVSEMNA----SNQGIGYLLVSAGSSMKMPLAFAG 229 ALPYFF L+++ LA +G+ V+E A + G+ Y ++ AG + +P FA Sbjct: 181 ALPYFFGGLRISSGLALIGAVVAEFVAGTGGTGSGLAYQILQAGFQLNIPRLFAA 235 >gi|300312968|ref|YP_003777060.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 283 Score = 107 bits (266), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 65/204 (31%), Positives = 104/204 (50%) Query: 54 VEYAGPITQHALSTFWVTMVGFAIAVGVGVTLGLVIGSSPMLYAAAYPLMTAFNALPKAA 113 + + I H L T T++ F I G+ +GL + SP A P + A N++P+ Sbjct: 73 LSFPAEIYSHLLITLTETVLAFVIGTVFGLAIGLWLALSPTASAILDPYVKAANSMPRVI 132 Query: 114 FVPVLVVWFGIGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARRLDILWK 173 P+ +WFG+G + A + FF + N+ G+ + P + R+LGA +L Sbjct: 133 LAPIFAMWFGLGIWSKVALAVTLVFFIVFFNVYQGVKEVSPVVLANARMLGANARQLLRT 192 Query: 174 VGLPRALPYFFASLKVAITLAFVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVI 233 V LP A + F+SL +I LAFVG+ V E S +G+GYL++ A + + FAG+VV+ Sbjct: 193 VYLPSATSWVFSSLHTSIGLAFVGAVVGEYLGSARGVGYLILQAEGTFDINTVFAGIVVL 252 Query: 234 GAMAMAMYELFAIIEKRTTGWAHR 257 A+ + +IEKR W + Sbjct: 253 TIFALVLDLAVGVIEKRLMKWQPK 276 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 91.7 bits (226), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 68/255 (26%), Positives = 126/255 (49%), Gaps = 20/255 (7%) Query: 23 IAILGVWQFICSVWEVSDFIFPSPASILQAMVEYAGPITQH------------------- 63 I ++ +W+ ++ I PSP ++L+ VEYA P+ + Sbjct: 17 IIVIALWEGASRAGWINPQILPSPWAVLRKWVEYATPLKPYDPEAGSWLAWAFSGELVMD 76 Query: 64 ALSTFWVTMVGFAIAVGVGVTLGLVIGSSPMLYAAAYPLMTAFNALPKAAFVPVLVVWFG 123 A+ + + + GF I G+ + LGL++GSS +Y + +P A++P+ ++WFG Sbjct: 77 AIGSLYRVVAGFLIGAGLALPLGLLMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAILWFG 136 Query: 124 IGAGPAILTAFLISFFPIMVNIATGLATLEPELEDVLRVLGARRLDILWKVGLPRALPYF 183 +G PA+ L +FFP+++N G+ ++ R LGA + + +V LP A+PY Sbjct: 137 LGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLGASQSTLFLRVMLPAAVPYI 196 Query: 184 FASLKVAITLAFVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAMYEL 243 + +++ I AF+ V+EM A + G+G+ ++ A AG++ IG + +A+ Sbjct: 197 LSGVRIGIGTAFIVVIVAEMIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLAIDLG 256 Query: 244 FAIIEKRTTGWAHRG 258 + + W HRG Sbjct: 257 MSRLNNYMLRW-HRG 270 >gi|300312684|ref|YP_003776776.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 284 Score = 90.9 bits (224), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 70/240 (29%), Positives = 114/240 (47%), Gaps = 6/240 (2%) Query: 21 LLIAILGVWQFICSVWEVSDFIFPSP----ASILQAMVE--YAGPITQHALSTFWVTMVG 74 +L+ +LG W+ + + F F P A I MVE GP+ L T T++G Sbjct: 40 ILVIVLGGWEVCARIGWIDPFFFSQPSLIVAQIYDWMVEGTSQGPLWTQVLVTLEETVLG 99 Query: 75 FAIAVGVGVTLGLVIGSSPMLYAAAYPLMTAFNALPKAAFVPVLVVWFGIGAGPAILTAF 134 F I GV G+V+G + +L + N++P+ + V+ FG+G + A Sbjct: 100 FLIGSVAGVIAGIVLGRNKLLSDVFSLYIQIANSIPRVVLGSIFVIAFGLGMASKVALAV 159 Query: 135 LISFFPIMVNIATGLATLEPELEDVLRVLGARRLDILWKVGLPRALPYFFASLKVAITLA 194 ++ FF + N G+ + + ++LGA R + V +P AL + ASL V+ A Sbjct: 160 VMVFFVVFANAFQGVREADRYMIANAQILGASRRQVTMAVVIPSALSWILASLHVSFGFA 219 Query: 195 FVGSTVSEMNASNQGIGYLLVSAGSSMKMPLAFAGLVVIGAMAMAMYELFAIIEKRTTGW 254 VG+ V E S QGIG L+ +A + FA ++V+ +A+A L +E+R W Sbjct: 220 LVGAVVGEFLGSKQGIGLLISTAQGAFNASGVFAAMIVLAVVALAADWLLHALERRLLKW 279 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 0.423 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: 757,216 Number of extensions: 29301 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 16 Length of query: 259 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 176 Effective length of database: 1,226,865 Effective search space: 215928240 Effective search space used: 215928240 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)