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= 0031.0096.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... 447 e-127 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 223 1e-59 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 211 4e-56 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 193 2e-50 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 176 1e-45 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 447 bits (1150), Expect = e-127, Method: Compositional matrix adjust. Identities = 220/268 (82%), Positives = 243/268 (90%) Query: 1 MKTLSNFTKKAAAVMLGLACFAQVVHADTLADIKARKKVLIAVDLGAPPFGMTNAKLEPQ 60 MK L +FT+KAAAV+LGLACFAQ HAD LADIKARKKVL+A+DLGAPPFGMTNAKLEPQ Sbjct: 1 MKKLLSFTRKAAAVVLGLACFAQAAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQ 60 Query: 61 GSDVETARALAKDLGVELEIVQVTGPNRVPFLMTGKADMVIATFSITPERAKVISFTHPY 120 GSDVETAR LAKDLGVELEIVQVTGPNR+PFLMTGKADMVI++FSITPER KV++FT PY Sbjct: 61 GSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPY 120 Query: 121 GASQFVVAAPKGTAIKSLADLNGKRIAVVRGNMQDSLLTPLAPKGATIVRFDDDATVTAA 180 GASQFVVAAPKG IKSL DL GKR+AVVRGNMQDSLLTP+APKG IVRFDDDATVTAA Sbjct: 121 GASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA 180 Query: 181 VVSGQVDGLCTPNALAAAIARQNPSKGLETKFAIKDIPYAIGIRQNEPELQKWLNAWVDT 240 ++SGQVD LCTPN+LA+AIA+QNPSK LETKFAIKDIPYAIG+R+ EP L+KWLN W+ Sbjct: 181 IISGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISA 240 Query: 241 NTKNGRLGQIYQQWVGTPMPDLAQFATK 268 N KNG+L IYQQWVG+PMPDLAQFA 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 = 223 bits (569), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 114/235 (48%), Positives = 150/235 (63%) Query: 26 HADTLADIKARKKVLIAVDLGAPPFGMTNAKLEPQGSDVETARALAKDLGVELEIVQVTG 85 AD L I A KK+ +A+DL PP+ M + KL GSDVETA+ +AKD G+ELE+V T Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 86 PNRVPFLMTGKADMVIATFSITPERAKVISFTHPYGASQFVVAAPKGTAIKSLADLNGKR 145 NRVP+L T KAD+VI+ FSITPERAKVI F+ PY VV AP+ I S ADL GK+ Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 146 IAVVRGNMQDSLLTPLAPKGATIVRFDDDATVTAAVVSGQVDGLCTPNALAAAIARQNPS 205 I RG D LT +AP ATI RFDDDAT A+VSGQ D T L + ++NPS Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 206 KGLETKFAIKDIPYAIGIRQNEPELQKWLNAWVDTNTKNGRLGQIYQQWVGTPMP 260 + +E+K +K A+G+R+ EP L++ ++ W+ TN NG L IY+++ +P Sbjct: 207 RDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELP 261 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 211 bits (538), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 110/247 (44%), Positives = 153/247 (61%), Gaps = 3/247 (1%) Query: 14 VMLGLACFAQVVHADTLADIKARKKVLIAVDLGAPPFGMTNAKLEPQGSDVETARALAKD 73 ++LGL A + AD L DIK K+ IA P FG ++ KL+ GSDVE AR LA+D Sbjct: 17 LVLGLTAHAAL--ADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQD 74 Query: 74 LGVELEIVQVTGPNRVPFLMTGKADMVIATFSITPERAKVISFTHPYGASQFVVAAPKGT 133 LGV+L+++ V RVP L +AD+V+ + SITPER KVI F+ PY ++ APK Sbjct: 75 LGVQLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSM 134 Query: 134 AIKSLADLNGKRIAVVRGNMQDSLLTPLAPKGATIVRFDDDATVTAAVVSGQVDGLCTPN 193 IK ADLNGKRI V R D+L T A KGA I+R++DDAT+ ++V+GQVD + Sbjct: 135 VIKDYADLNGKRIGVTRATPNDTLTTQNA-KGAEIMRYEDDATLITSMVTGQVDVFSSTP 193 Query: 194 ALAAAIARQNPSKGLETKFAIKDIPYAIGIRQNEPELQKWLNAWVDTNTKNGRLGQIYQQ 253 + + ++ P K LE KF K I I +N+P L++W++ WV TN KNG+L IY++ Sbjct: 194 SNLQEMQKKAPGKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKK 253 Query: 254 WVGTPMP 260 + G +P Sbjct: 254 YHGRDLP 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 = 193 bits (490), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 106/255 (41%), Positives = 154/255 (60%), Gaps = 1/255 (0%) Query: 7 FTKKAAAVMLGLACF-AQVVHADTLADIKARKKVLIAVDLGAPPFGMTNAKLEPQGSDVE 65 TK +M G F A V AD L DI+ + +AV PPFG +A L+PQG D++ Sbjct: 3 LTKLLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDID 62 Query: 66 TARALAKDLGVELEIVQVTGPNRVPFLMTGKADMVIATFSITPERAKVISFTHPYGASQF 125 A +AK LGV++E++ V+ NR+P+L T K D+VI++ ER KVI F+ Y Sbjct: 63 VATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFN 122 Query: 126 VVAAPKGTAIKSLADLNGKRIAVVRGNMQDSLLTPLAPKGATIVRFDDDATVTAAVVSGQ 185 V P ++KS ADL GK IAV RG+++D LT + P AT+ R++D+ + ++ +SGQ Sbjct: 123 GVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQ 182 Query: 186 VDGLCTPNALAAAIARQNPSKGLETKFAIKDIPYAIGIRQNEPELQKWLNAWVDTNTKNG 245 V + T N +AAAI +NP K ETKF IKD P IG+ + E +LQ ++A + + K+G Sbjct: 183 VQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDG 242 Query: 246 RLGQIYQQWVGTPMP 260 L I Q+W+G P+P Sbjct: 243 SLSAISQKWLGMPLP 257 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 176 bits (447), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 99/237 (41%), Positives = 142/237 (59%), Gaps = 1/237 (0%) Query: 29 TLADIKARKKVLIAVDLGAPPFGMTNAKLEPQGSDVETARALAKDLGVELEIVQVTGPNR 88 ++AD+ + K+ I V G PPFG +AK P G DV+ A + K LG+ +EIV + P R Sbjct: 32 SIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYDVDVANLIGKYLGLPVEIVPLVPPAR 91 Query: 89 VPFLMTGKADMVIATFSITPERAKVISFTHPYGASQFVVAAPKGTAIKSLADLNGKRIAV 148 +P L +GK DM+ AT + TPERAK + FT PY + + AP G+ K L DL K++ V Sbjct: 92 IPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVKKKVGV 151 Query: 149 VRGNMQDSLLTPLAPKGATIVRFDDDATVTAAVVSGQVDGLCTPNALAAAIARQNPSKGL 208 RG+ D+ LT LAP G +VRF+DD+TVT A++S QVD + PN +A I + + Sbjct: 152 SRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIVKSRGQGKI 211 Query: 209 ETKFAIKDIPYAIGIRQNEPELQKWLNAWVDTNTKNGRLGQIYQQWVGTPMPDLAQF 265 E KF P ++ +R+ ELQ+WLN ++ NG L I ++W G P+P+L F 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 0.318 0.132 0.382 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: 848,365 Number of extensions: 35643 Number of successful extensions: 142 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 16 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 (21.7 bits) S2: 130 (54.7 bits)