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= 0133.0003.p (249 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 380 e-107 gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 369 e-103 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 296 1e-81 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 157 6e-40 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 151 4e-38 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 380 bits (975), Expect = e-107, Method: Compositional matrix adjust. Identities = 176/243 (72%), Positives = 209/243 (86%) Query: 7 RADALSDITKSGTIRIAVPQDFQPYGSVNSDLQLQGLDIDVARLVAKGLGVKVVLVPVAS 66 RADAL+DI K+G +RI VPQDF P+GSVN+DLQLQGLDIDVARL+A+ +GVK+ LVPVAS Sbjct: 25 RADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARLIAQKMGVKLQLVPVAS 84 Query: 67 ANRIPYLQTHKVDLVISTLGRNAERDKVLDFTQPYAPFNNSLFGASEIKVSGPSDMANQT 126 ANRI YLQTHK DLVISTLGRNAER+KV+DF+QPYAP+NNS+FG + +KVSGP+D+A++T Sbjct: 85 ANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVASVKVSGPADLADKT 144 Query: 127 VGVARGTFEDIQLTKTVPASTVIKRYEDNNTLISAYVSGQVKLIGTGDFVAITLGEKDPD 186 VGVARGTF+D+QLT T P S IKRYEDNN +ISAYVSGQV+L+GTGDFVA L EK P+ Sbjct: 145 VGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAPN 204 Query: 187 HKPVFKYTIQESRCVIGLNKGEAPLQAKVNEILTKSKKSGELNALVKKWLNAPLPEKLAT 246 +KPV KY IQES C +GLNKGE L AKVNE LT +KKSGELN +V+KWLN PLP K+A Sbjct: 205 NKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNGIVQKWLNVPLPAKMAA 264 Query: 247 TYE 249 T + Sbjct: 265 TLQ 267 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 369 bits (946), Expect = e-103, Method: Compositional matrix adjust. Identities = 172/242 (71%), Positives = 205/242 (84%) Query: 8 ADALSDITKSGTIRIAVPQDFQPYGSVNSDLQLQGLDIDVARLVAKGLGVKVVLVPVASA 67 AD L+DI K+G ++I VPQDF PYGSV SDLQLQGLDIDVARLVAKG+GVK LVPV + Sbjct: 24 ADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVARLVAKGMGVKAELVPVPIS 83 Query: 68 NRIPYLQTHKVDLVISTLGRNAERDKVLDFTQPYAPFNNSLFGASEIKVSGPSDMANQTV 127 +R+ +LQTHK+DL+ISTLG+NAER+KV+DF+Q YAP+NNS+FG + IKV+GP+D+ANQTV Sbjct: 84 SRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSVFGVAAIKVAGPADLANQTV 143 Query: 128 GVARGTFEDIQLTKTVPASTVIKRYEDNNTLISAYVSGQVKLIGTGDFVAITLGEKDPDH 187 GVAR TFED+ LT +VP STVIKRYEDNN LI+AYVSGQV+L+GTGDFVA L EK P + Sbjct: 144 GVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVSGQVQLVGTGDFVAYALAEKTPAN 203 Query: 188 KPVFKYTIQESRCVIGLNKGEAPLQAKVNEILTKSKKSGELNALVKKWLNAPLPEKLATT 247 KP+ KY I S C +G+NKGE L AKVNE LT SKKSGELN +VKKWLN PLPEK+ATT Sbjct: 204 KPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGELNGIVKKWLNVPLPEKIATT 263 Query: 248 YE 249 Y+ Sbjct: 264 YQ 265 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 296 bits (758), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 140/238 (58%), Positives = 185/238 (77%) Query: 7 RADALSDITKSGTIRIAVPQDFQPYGSVNSDLQLQGLDIDVARLVAKGLGVKVVLVPVAS 66 RADAL DI K GT+R+AVP DF P+GSV++DL+ QGLDIDVA L+AK LGVKV L+PV+S Sbjct: 23 RADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATLIAKKLGVKVELIPVSS 82 Query: 67 ANRIPYLQTHKVDLVISTLGRNAERDKVLDFTQPYAPFNNSLFGASEIKVSGPSDMANQT 126 ANRIPYL T KVDLVIS++G+NAER+KV+DF+ YAPF N +FG +++ V +D+A +T Sbjct: 83 ANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKSAADLAGKT 142 Query: 127 VGVARGTFEDIQLTKTVPASTVIKRYEDNNTLISAYVSGQVKLIGTGDFVAITLGEKDPD 186 + V RG+ ED++LTK VPAS +KRYEDNN+ IS+++SGQV+L+ TG+ VA + ++P Sbjct: 143 IAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAIIARNPP 202 Query: 187 HKPVFKYTIQESRCVIGLNKGEAPLQAKVNEILTKSKKSGELNALVKKWLNAPLPEKL 244 KP K+ I++S C IGLNKGE LQ KV+ IL +SKK G L+A+ +KWL PLP L Sbjct: 203 KKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGMPLPAGL 260 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 157 bits (398), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 83/238 (34%), Positives = 137/238 (57%) Query: 7 RADALSDITKSGTIRIAVPQDFQPYGSVNSDLQLQGLDIDVARLVAKGLGVKVVLVPVAS 66 +AD L I + +R+A+ PY + L+L G D++ A+ +AK G+++ +VP Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 67 ANRIPYLQTHKVDLVISTLGRNAERDKVLDFTQPYAPFNNSLFGASEIKVSGPSDMANQT 126 NR+PYLQT+K D+VIS ER KV+DF+ PYAP + +K++ P+D+A + Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 127 VGVARGTFEDIQLTKTVPASTVIKRYEDNNTLISAYVSGQVKLIGTGDFVAITLGEKDPD 186 + RGT D +LTK P+S I R++D+ T ++A VSGQ + T + + +K+P Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 187 HKPVFKYTIQESRCVIGLNKGEAPLQAKVNEILTKSKKSGELNALVKKWLNAPLPEKL 244 K T++ + +GL KGE L+ K++ + + +GELN + KK+ A LP ++ Sbjct: 207 RDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELPPEI 264 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 151 bits (382), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 84/238 (35%), Positives = 136/238 (57%), Gaps = 16/238 (6%) Query: 13 DITKSGTIRIAVPQDFQPYGSVNSDLQLQGLDIDVARLVAKGLGVKVVLVPVASANRIPY 72 DI + +A+ P+G N+ L+ QG D++ ARL+AK LGV++ +V V NRIP+ Sbjct: 32 DIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPF 91 Query: 73 LQTHKVDLVISTLGRNAERDKVLDFTQPYAPFNNSLFGASEIKVSGP--------SDMAN 124 L T K D+VIS+ ER KV+ FTQPY GAS+ V+ P +D+ Sbjct: 92 LMTGKADMVISSFSITPERQKVVAFTQPY--------GASQFVVAAPKGENIKSLNDLVG 143 Query: 125 QTVGVARGTFEDIQLTKTVPASTVIKRYEDNNTLISAYVSGQVKLIGTGDFVAITLGEKD 184 + V V RG +D LT P T I R++D+ T+ +A +SGQV + T + +A + +++ Sbjct: 144 KRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIAKQN 203 Query: 185 PDHKPVFKYTIQESRCVIGLNKGEAPLQAKVNEILTKSKKSGELNALVKKWLNAPLPE 242 P K+ I++ IGL KGE L+ +NE ++ + K+G+L + ++W+ +P+P+ Sbjct: 204 PSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQWVGSPMPD 261 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 0.133 0.372 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: 687,265 Number of extensions: 24965 Number of successful extensions: 81 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 76 Number of HSP's successfully gapped: 14 Length of query: 249 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 166 Effective length of database: 1,226,865 Effective search space: 203659590 Effective search space used: 203659590 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: 42 (22.0 bits) S2: 129 (54.3 bits)