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= 0002.0627.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... 448 e-127 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 308 4e-85 gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 290 1e-79 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 173 1e-44 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 168 3e-43 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 448 bits (1152), Expect = e-127, Method: Compositional matrix adjust. Identities = 222/260 (85%), Positives = 239/260 (91%) Query: 1 MKLSTLLLGLMAGALLISTSVARADALDDIQKAGVLRVAVPQDFPPFGSVTADLKPQGLD 60 MKL+ LLLGLMAGA++ S SVARADALDDIQK G LRVAVP DFPPFGSV ADLKPQGLD Sbjct: 1 MKLTKLLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 Query: 61 IDVASLIAKKLGVKVELIPVTSANRVPYLQTRKVDLVISSMGKNAEREKVIDFTAAYAPF 120 IDVA+LIAKKLGVKVELIPV+SANR+PYL T+KVDLVISSMGKNAEREKVIDF+AAYAPF Sbjct: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 Query: 121 FNGVFGPADQKVSGPADLAGKTIGVTRGSVEDLELSKIVPASATVKRYEDNNGTISSFLS 180 FNGVFGPAD V ADLAGKTI VTRGSVEDLEL+KIVPASATVKRYEDNN TISSFLS Sbjct: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 Query: 181 NQVQLVATGNVIAAAIIAKNPPKKPETKFLIKDSPCFIGLNKDEKKLQDKVNAVLAEIKK 240 QVQLVATGNV+AAAIIA+NPPKKPETKFLIKDSPCFIGLNK EKKLQDKV+A+LAE KK Sbjct: 181 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK 240 Query: 241 NGELSALTVKWLGLPLPATL 260 +G LSA++ KWLG+PLPA L 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 = 308 bits (788), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 149/254 (58%), Positives = 190/254 (74%) Query: 7 LLGLMAGALLISTSVARADALDDIQKAGVLRVAVPQDFPPFGSVTADLKPQGLDIDVASL 66 +L ++ G + +ARADAL DIQK GV+R+ VPQDF PFGSV DL+ QGLDIDVA L Sbjct: 9 MLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARL 68 Query: 67 IAKKLGVKVELIPVTSANRVPYLQTRKVDLVISSMGKNAEREKVIDFTAAYAPFFNGVFG 126 IA+K+GVK++L+PV SANR+ YLQT K DLVIS++G+NAEREKVIDF+ YAP+ N VFG Sbjct: 69 IAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFG 128 Query: 127 PADQKVSGPADLAGKTIGVTRGSVEDLELSKIVPASATVKRYEDNNGTISSFLSNQVQLV 186 A KVSGPADLA KT+GV RG+ +DL+L+ P SAT+KRYEDNN IS+++S QVQLV Sbjct: 129 VASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLV 188 Query: 187 ATGNVIAAAIIAKNPPKKPETKFLIKDSPCFIGLNKDEKKLQDKVNAVLAEIKKNGELSA 246 TG+ +A A+ K P KP K++I++S C +GLNK E L KVN L KK+GEL+ Sbjct: 189 GTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNG 248 Query: 247 LTVKWLGLPLPATL 260 + KWL +PLPA + Sbjct: 249 IVQKWLNVPLPAKM 262 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 290 bits (741), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 141/250 (56%), Positives = 184/250 (73%), Gaps = 4/250 (1%) Query: 8 LGLMAGALLISTSVARADALDDIQKAGVLRVAVPQDFPPFGSVTADLKPQGLDIDVASLI 67 LGLMA ++ A AD L DIQKAGV+++ VPQDF P+GSVT+DL+ QGLDIDVA L+ Sbjct: 12 LGLMA----VAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVARLV 67 Query: 68 AKKLGVKVELIPVTSANRVPYLQTRKVDLVISSMGKNAEREKVIDFTAAYAPFFNGVFGP 127 AK +GVK EL+PV ++R+ +LQT K+DL+IS++GKNAEREKVIDF+ YAP+ N VFG Sbjct: 68 AKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSVFGV 127 Query: 128 ADQKVSGPADLAGKTIGVTRGSVEDLELSKIVPASATVKRYEDNNGTISSFLSNQVQLVA 187 A KV+GPADLA +T+GV R + EDL L+ VP S +KRYEDNNG I++++S QVQLV Sbjct: 128 AAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVSGQVQLVG 187 Query: 188 TGNVIAAAIIAKNPPKKPETKFLIKDSPCFIGLNKDEKKLQDKVNAVLAEIKKNGELSAL 247 TG+ +A A+ K P KP K++I S C++G+NK E L KVN L KK+GEL+ + Sbjct: 188 TGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGELNGI 247 Query: 248 TVKWLGLPLP 257 KWL +PLP Sbjct: 248 VKKWLNVPLP 257 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 173 bits (439), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 93/235 (39%), Positives = 140/235 (59%) Query: 23 RADALDDIQKAGVLRVAVPQDFPPFGSVTADLKPQGLDIDVASLIAKKLGVKVELIPVTS 82 +AD LD I A LRVA+ PP+ L+ G D++ A +AK G+++E++P T Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 83 ANRVPYLQTRKVDLVISSMGKNAEREKVIDFTAAYAPFFNGVFGPADQKVSGPADLAGKT 142 NRVPYLQT K D+VIS+ ER KVIDF+ YAP V P K++ PADLAGK Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 143 IGVTRGSVEDLELSKIVPASATVKRYEDNNGTISSFLSNQVQLVATGNVIAAAIIAKNPP 202 I TRG+ D EL+KI P+SAT+ R++D+ ++++ +S Q + AT ++ + KNP Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 203 KKPETKFLIKDSPCFIGLNKDEKKLQDKVNAVLAEIKKNGELSALTVKWLGLPLP 257 + E+K +K + +GL K E +L++K++ + NGEL+ + K+ LP Sbjct: 207 RDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELP 261 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 168 bits (426), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 91/229 (39%), Positives = 134/229 (58%) Query: 29 DIQKAGVLRVAVPQDFPPFGSVTADLKPQGLDIDVASLIAKKLGVKVELIPVTSANRVPY 88 DI+ + VA+ PPFG A L+PQG D++ A L+AK LGV++E++ VT NR+P+ Sbjct: 32 DIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLAKDLGVELEIVQVTGPNRIPF 91 Query: 89 LQTRKVDLVISSMGKNAEREKVIDFTAAYAPFFNGVFGPADQKVSGPADLAGKTIGVTRG 148 L T K D+VISS ER+KV+ FT Y V P + + DL GK + V RG Sbjct: 92 LMTGKADMVISSFSITPERQKVVAFTQPYGASQFVVAAPKGENIKSLNDLVGKRVAVVRG 151 Query: 149 SVEDLELSKIVPASATVKRYEDNNGTISSFLSNQVQLVATGNVIAAAIIAKNPPKKPETK 208 +++D L+ I P + R++D+ ++ +S QV + T N +A+AI +NP K ETK Sbjct: 152 NMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVDALCTPNSLASAIAKQNPSKNLETK 211 Query: 209 FLIKDSPCFIGLNKDEKKLQDKVNAVLAEIKKNGELSALTVKWLGLPLP 257 F IKD P IGL K E L+ +N ++ KNG+L + +W+G P+P Sbjct: 212 FAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLPGIYQQWVGSPMP 260 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 0.134 0.368 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: 671,204 Number of extensions: 24986 Number of successful extensions: 145 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 132 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)