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= 0001.3781.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... 503 e-144 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 224 4e-60 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 207 5e-55 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 196 2e-51 gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter peri... 182 3e-47 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 503 bits (1294), Expect = e-144, Method: Compositional matrix adjust. Identities = 257/268 (95%), Positives = 260/268 (97%) Query: 1 MNHLLSFIRKAAAVALGLACLAQAAQADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQ 60 M LLSF RKAAAV LGLAC AQAA ADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQ Sbjct: 1 MKKLLSFTRKAAAVVLGLACFAQAAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQ 60 Query: 61 GSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPY 120 GSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPY Sbjct: 61 GSDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPY 120 Query: 121 GASQFVVAAPKTENIKSINDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA 180 GASQFVVAAPK ENIKS+NDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA Sbjct: 121 GASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA 180 Query: 181 ILSGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWITA 240 I+SGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWI+A Sbjct: 181 IISGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISA 240 Query: 241 NLKNGKLPAIYQQWVGSPMPDLAQFAAK 268 NLKNGKLP IYQQWVGSPMPDLAQFAAK 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 = 224 bits (572), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 115/235 (48%), Positives = 153/235 (65%) Query: 26 QADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTG 85 QAD L I A KK+ VAIDL PP+ M + KL GSDVETA+ +AKD G+ELE+V T Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 86 PNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKTENIKSINDLVGKR 145 NR+P+L T KAD+VIS+FSITPER KV+ F+ PY VV AP++ I S DL GK+ Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 146 VAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAILSGQVDALCTPNSLASAIAKQNPS 205 + RG D LT IAP I RFDDDAT A++SGQ D T L + ++NPS Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 206 KNLETKFAIKDIPYAIGLRKGEPALEKWLNEWITANLKNGKLPAIYQQWVGSPMP 260 +++E+K +K A+GLRKGEP L++ ++ WI NL 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 = 207 bits (528), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 107/245 (43%), Positives = 151/245 (61%), Gaps = 1/245 (0%) Query: 16 LGLACLAQAAQADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLG 75 L L A AA AD L DIK K+ +A P FG ++ KL+ GSDVE ARLLA+DLG Sbjct: 17 LVLGLTAHAALADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQDLG 76 Query: 76 VELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKTENI 135 V+L+++ V R+P L +AD+V+ S SITPER KV+ F+ PY ++ APK+ I Sbjct: 77 VQLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMVI 136 Query: 136 KSINDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAILSGQVDALCTPNSL 195 K DL GKR+ V R D+L T A KG I+R++DDAT+ ++++GQVD + S Sbjct: 137 KDYADLNGKRIGVTRATPNDTLTTQNA-KGAEIMRYEDDATLITSMVTGQVDVFSSTPSN 195 Query: 196 ASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWITANLKNGKLPAIYQQWV 255 + K+ P KNLE KF K I + K +P L++W++ W+ N+KNGKL AIY+++ Sbjct: 196 LQEMQKKAPGKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKKYH 255 Query: 256 GSPMP 260 G +P Sbjct: 256 GRDLP 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 = 196 bits (497), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 104/239 (43%), Positives = 149/239 (62%) Query: 22 AQAAQADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIV 81 A A+ADAL DI+ + VA+ PPFG +A L+PQG D++ A L+AK LGV++E++ Sbjct: 19 ASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATLIAKKLGVKVELI 78 Query: 82 QVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKTENIKSINDL 141 V+ NRIP+L T K D+VISS ER+KV+ F+ Y V P ++KS DL Sbjct: 79 PVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKSAADL 138 Query: 142 VGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAILSGQVDALCTPNSLASAIAK 201 GK +AV RG+++D LT I P + R++D+ + ++ LSGQV + T N +A+AI Sbjct: 139 AGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAIIA 198 Query: 202 QNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWITANLKNGKLPAIYQQWVGSPMP 260 +NP K ETKF IKD P IGL KGE L+ ++ + + K+G L AI Q+W+G P+P Sbjct: 199 RNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGMPLP 257 >gi|300310826|ref|YP_003774918.1| amino-acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 182 bits (461), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 149/237 (62%), Gaps = 1/237 (0%) Query: 29 ALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNR 88 ++AD+ + K+ + + G PPFG +AK P G DV+ A L+ K LG+ +EIV + P R Sbjct: 32 SIADLTKKGKITIGVVSGTPPFGSVDAKGTPIGYDVDVANLIGKYLGLPVEIVPLVPPAR 91 Query: 89 IPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKTENIKSINDLVGKRVAV 148 IP L +GK DM+ ++ + TPER K V FT PY + + AP N K ++DLV K+V V Sbjct: 92 IPALESGKVDMLAATLAPTPERAKSVLFTIPYSGFELSIVAPVGSNYKKLDDLVKKKVGV 151 Query: 149 VRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAILSGQVDALCTPNSLASAIAKQNPSKNL 208 RG+ D+ LT +AP GT +VRF+DD+TVT A+LS QVDA+ PN++A+ I K + Sbjct: 152 SRGSTNDTALTRLAPPGTVLVRFEDDSTVTQALLSNQVDAISIPNTMANEIVKSRGQGKI 211 Query: 209 ETKFAIKDIPYAIGLRKGEPALEKWLNEWITANLKNGKLPAIYQQWVGSPMPDLAQF 265 E KF P ++ +RKG L++WLN +I NG+L AI ++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 0.317 0.132 0.376 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: 758,639 Number of extensions: 29743 Number of successful extensions: 129 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 118 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)