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= 0031.0260.p (260 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 515 e-147 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 301 4e-83 gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 273 1e-74 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 184 7e-48 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 178 5e-46 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 515 bits (1326), Expect = e-147, Method: Compositional matrix adjust. Identities = 259/260 (99%), Positives = 259/260 (99%) Query: 1 MKLTKLLLGLMAGAMMFSASVAHADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 MKLTKLLLGLMAGAMMFSASVA ADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD Sbjct: 1 MKLTKLLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 Query: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF Sbjct: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 Query: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS Sbjct: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 Query: 181 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK 240 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK Sbjct: 181 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK 240 Query: 241 DGSLSAISQKWLGMPLPAGL 260 DGSLSAISQKWLGMPLPAGL Sbjct: 241 DGSLSAISQKWLGMPLPAGL 260 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 301 bits (770), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 147/260 (56%), Positives = 189/260 (72%) Query: 1 MKLTKLLLGLMAGAMMFSASVAHADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 M K +L ++ G +A ADAL DIQK+G +R+ VP DF PFGSV+ DL+ QGLD Sbjct: 3 MSPRKTMLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLD 62 Query: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 IDVA LIA+K+GVK++L+PV+SANRI YL T K DLVIS++G+NAEREKVIDFS YAP+ Sbjct: 63 IDVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPY 122 Query: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 N VFG A + V ADLA KT+ V RG+ +DL+LT P SAT+KRYEDNN+ IS+++S Sbjct: 123 NNSVFGVASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVS 182 Query: 181 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK 240 GQVQLV TG+ VA A+ + P KP K++I++S C +GLNKGE L KV+ L +KK Sbjct: 183 GQVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKK 242 Query: 241 DGSLSAISQKWLGMPLPAGL 260 G L+ I QKWL +PLPA + Sbjct: 243 SGELNGIVQKWLNVPLPAKM 262 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 273 bits (698), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 134/257 (52%), Positives = 175/257 (68%) Query: 1 MKLTKLLLGLMAGAMMFSASVAHADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 M K + G M + A AD L DIQK G +++ VP DF P+GSV +DL+ QGLD Sbjct: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 Query: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 IDVA L+AK +GVK EL+PV ++R+ +L T K+DL+IS++GKNAEREKVIDFS YAP+ Sbjct: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 Query: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 N VFG A + V ADLA +T+ V R + EDL LT VP S +KRYEDNN I++++S Sbjct: 121 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS 180 Query: 181 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK 240 GQVQLV TG+ VA A+ + P KP K++I S C++G+NKGE L KV+ L SKK Sbjct: 181 GQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 Query: 241 DGSLSAISQKWLGMPLP 257 G L+ I +KWL +PLP Sbjct: 241 SGELNGIVKKWLNVPLP 257 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 184 bits (467), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 96/229 (41%), Positives = 142/229 (62%) Query: 29 DIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATLIAKKLGVKVELIPVSSANRIPY 88 DI+ + VA+ PPFG +A L+PQG D++ A L+AK LGV++E++ V+ NRIP+ Sbjct: 32 DIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPF 91 Query: 89 LTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKSAADLAGKTIAVTRG 148 L T K D+VISS ER+KV+ F+ Y V P ++KS DL GK +AV RG Sbjct: 92 LMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGKRVAVVRG 151 Query: 149 SVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAIIARNPPKKPETK 208 +++D LT I P + R++D+ + ++ +SGQV + T N +A+AI +NP K ETK Sbjct: 152 NMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIAKQNPSKNLETK 211 Query: 209 FLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGMPLP 257 F IKD P IGL KGE L+ ++ ++ + K+G L I Q+W+G P+P Sbjct: 212 FAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQWVGSPMP 260 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 178 bits (451), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 92/235 (39%), Positives = 141/235 (60%) Query: 23 HADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATLIAKKLGVKVELIPVSS 82 AD LD I LRVA+ PP+ D L+ G D++ A +AK G+++E++P + Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 83 ANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKSAADLAGKT 142 NR+PYL T K D+VIS+ ER KVIDFS YAP V P + + S ADLAGK Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 143 IAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAIIARNPP 202 I TRG+ D ELTKI P+SAT+ R++D+ +++++ +SGQ + AT ++ + +NP Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 203 KKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGMPLP 257 + E+K +K + +GL KGE +L++K+D + + +G L+ I +K+ LP Sbjct: 207 RDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELP 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 0.316 0.133 0.366 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: 737,726 Number of extensions: 28869 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 126 Number of HSP's successfully gapped: 16 Length of query: 260 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 177 Effective length of database: 1,226,865 Effective search space: 217155105 Effective search space used: 217155105 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: 129 (54.3 bits)