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= 0034.0142.p (268 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 324 4e-90 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 220 7e-59 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 210 1e-55 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 169 3e-43 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 153 2e-38 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 324 bits (831), Expect = 4e-90, Method: Compositional matrix adjust. Identities = 157/268 (58%), Positives = 205/268 (76%) Query: 1 MHTFKASIKYAAAAVLGLLFLTQSASADTLNDIRQRKKIVIAIDLGSPPFGMTDDKLQPY 60 M + + AAA VLGL Q+A AD L DI+ RKK+++AIDLG+PPFGMT+ KL+P Sbjct: 1 MKKLLSFTRKAAAVVLGLACFAQAAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQ 60 Query: 61 GSDVSAAKMLAKDLGVEMEIIQVTGPNRVPFLLTNKADIVIASFSITPERAKVINFSVPY 120 GSDV A++LAKDLGVE+EI+QVTGPNR+PFL+T KAD+VI+SFSITPER KV+ F+ PY Sbjct: 61 GSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPY 120 Query: 121 SASESVVGAEKTMQIKSLADLAGKRVGVVRGNLQDTLLTPIVPKGTTLVRYDDDSTNAAA 180 AS+ VV A K IKSL DL GKRV VVRGN+QD+LLTPI PKGT +VR+DDD+T AA Sbjct: 121 GASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA 180 Query: 181 LLSGQVDAIGTAKELVTTTARKNPGRNIETKFSVKVVPHGIGVRKEDTALLAWINNWVVA 240 ++SGQVDA+ T L + A++NP +N+ETKF++K +P+ IG+RK + AL W+N W+ A Sbjct: 181 IISGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISA 240 Query: 241 NMKNGNLAKSYEAAAGAPLPDLSQYMPK 268 N+KNG L Y+ G+P+PDL+Q+ K Sbjct: 241 NLKNGKLPGIYQQWVGSPMPDLAQFAAK 268 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 220 bits (561), Expect = 7e-59, Method: Compositional matrix adjust. Identities = 113/234 (48%), Positives = 154/234 (65%) Query: 27 ADTLNDIRQRKKIVIAIDLGSPPFGMTDDKLQPYGSDVSAAKMLAKDLGVEMEIIQVTGP 86 AD L+ I KK+ +AIDL PP+ M DDKL+ GSDV A+ +AKD G+E+E++ T Sbjct: 28 ADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLT 87 Query: 87 NRVPFLLTNKADIVIASFSITPERAKVINFSVPYSASESVVGAEKTMQIKSLADLAGKRV 146 NRVP+L TNKADIVI++FSITPERAKVI+FSVPY+ VVGA ++M+I S ADLAGK++ Sbjct: 88 NRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKKI 147 Query: 147 GVVRGNLQDTLLTPIVPKGTTLVRYDDDSTNAAALLSGQVDAIGTAKELVTTTARKNPGR 206 RG D LT I P T+ R+DDD+T+ A++SGQ D T+ L+ +KNP R Sbjct: 148 IATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPSR 207 Query: 207 NIETKFSVKVVPHGIGVRKEDTALLAWINNWVVANMKNGNLAKSYEAAAGAPLP 260 +IE+K ++K +G+RK + L I+ W+ N+ NG L Y+ A LP Sbjct: 208 DIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELP 261 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 210 bits (534), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 114/246 (46%), Positives = 152/246 (61%), Gaps = 3/246 (1%) Query: 15 VLGLLFLTQSASADTLNDIRQRKKIVIAIDLGSPPFGMTDDKLQPYGSDVSAAKMLAKDL 74 VLGL +A AD L+DI++ KI IA +P FG +D+KLQ GSDV AA++LA+DL Sbjct: 18 VLGLT--AHAALADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQDL 75 Query: 75 GVEMEIIQVTGPNRVPFLLTNKADIVIASFSITPERAKVINFSVPYSASESVVGAEKTMQ 134 GV++++I V RVP L N+ADIV+ S SITPER KVI+FS PY+ ++GA K+M Sbjct: 76 GVQLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMV 135 Query: 135 IKSLADLAGKRVGVVRGNLQDTLLTPIVPKGTTLVRYDDDSTNAAALLSGQVDAIGTAKE 194 IK ADL GKR+GV R DTL T KG ++RY+DD+T ++++GQVD + Sbjct: 136 IKDYADLNGKRIGVTRATPNDTLTTQNA-KGAEIMRYEDDATLITSMVTGQVDVFSSTPS 194 Query: 195 LVTTTARKNPGRNIETKFSVKVVPHGIGVRKEDTALLAWINNWVVANMKNGNLAKSYEAA 254 + +K PG+N+E KF K GI + K L WI+ WV NMKNG L Y+ Sbjct: 195 NLQEMQKKAPGKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKKY 254 Query: 255 AGAPLP 260 G LP Sbjct: 255 HGRDLP 260 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 169 bits (427), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 91/243 (37%), Positives = 142/243 (58%) Query: 18 LLFLTQSASADTLNDIRQRKKIVIAIDLGSPPFGMTDDKLQPYGSDVSAAKMLAKDLGVE 77 ++F A AD L+DI++ + +A+ PPFG D L+P G D+ A ++AK LGV+ Sbjct: 15 MMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATLIAKKLGVK 74 Query: 78 MEIIQVTGPNRVPFLLTNKADIVIASFSITPERAKVINFSVPYSASESVVGAEKTMQIKS 137 +E+I V+ NR+P+L T K D+VI+S ER KVI+FS Y+ + V + +KS Sbjct: 75 VELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKS 134 Query: 138 LADLAGKRVGVVRGNLQDTLLTPIVPKGTTLVRYDDDSTNAAALLSGQVDAIGTAKELVT 197 ADLAGK + V RG+++D LT IVP T+ RY+D+++ ++ LSGQV + T + Sbjct: 135 AADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAA 194 Query: 198 TTARKNPGRNIETKFSVKVVPHGIGVRKEDTALLAWINNWVVANMKNGNLAKSYEAAAGA 257 +NP + ETKF +K P IG+ K + L ++ + + K+G+L+ + G Sbjct: 195 AIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGM 254 Query: 258 PLP 260 PLP Sbjct: 255 PLP 257 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 153 bits (386), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 132/237 (55%), Gaps = 1/237 (0%) Query: 29 TLNDIRQRKKIVIAIDLGSPPFGMTDDKLQPYGSDVSAAKMLAKDLGVEMEIIQVTGPNR 88 ++ D+ ++ KI I + G+PPFG D K P G DV A ++ K LG+ +EI+ + P R Sbjct: 32 SIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYDVDVANLIGKYLGLPVEIVPLVPPAR 91 Query: 89 VPFLLTNKADIVIASFSITPERAKVINFSVPYSASESVVGAEKTMQIKSLADLAGKRVGV 148 +P L + K D++ A+ + TPERAK + F++PYS E + A K L DL K+VGV Sbjct: 92 IPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVKKKVGV 151 Query: 149 VRGNLQDTLLTPIVPKGTTLVRYDDDSTNAAALLSGQVDAIGTAKELVTTTARKNPGRNI 208 RG+ DT LT + P GT LVR++DDST ALLS QVDAI + + I Sbjct: 152 SRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIVKSRGQGKI 211 Query: 209 ETKFSVKVVPHGIGVRKEDTALLAWINNWVVANMKNGNLAKSYEAAAGAPLPDLSQY 265 E KF V P+ + VRK L W+NN++ NG L AG PLP+L + Sbjct: 212 EVKFPYSVQPNSMTVRKGSYELQQWLNNFIYYVKLNGELDAISRKWAG-PLPNLPVF 267 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 0.315 0.131 0.364 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: 786,411 Number of extensions: 30808 Number of successful extensions: 124 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 117 Number of HSP's successfully gapped: 15 Length of query: 268 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 184 Effective length of database: 1,222,130 Effective search space: 224871920 Effective search space used: 224871920 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 130 (54.7 bits)