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= 0029.0099.p (265 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 536 e-154 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 411 e-116 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 273 9e-75 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 150 1e-37 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 138 5e-34 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 536 bits (1381), Expect = e-154, Method: Compositional matrix adjust. Identities = 265/265 (100%), Positives = 265/265 (100%) Query: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD Sbjct: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 Query: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY Sbjct: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 Query: 121 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS 180 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS Sbjct: 121 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS 180 Query: 181 GQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 GQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK Sbjct: 181 GQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 Query: 241 SGELNGIVKKWLNVPLPEKIATTYQ 265 SGELNGIVKKWLNVPLPEKIATTYQ Sbjct: 241 SGELNGIVKKWLNVPLPEKIATTYQ 265 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 411 bits (1056), Expect = e-116, Method: Compositional matrix adjust. Identities = 200/265 (75%), Positives = 230/265 (86%) Query: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 M+ KT +A LGL A+ A AD LADIQK GVV+IGVPQDFAP+GSV +DLQLQGLD Sbjct: 3 MSPRKTMLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLD 62 Query: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 IDVARL+A+ MGVK +LVPV ++R+A+LQTHK DL+ISTLG+NAEREKVIDFSQ YAPY Sbjct: 63 IDVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPY 122 Query: 121 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS 180 NNSVFGVA++KV+GPADLA++TVGVAR TF+DL LTD+ PKS IKRYEDNN +I+AYVS Sbjct: 123 NNSVFGVASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVS 182 Query: 181 GQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 GQVQLVGTGDFVAYALAEK P NKP+LKYII S C VG+NKGEPAL+AKVNEALTA+KK Sbjct: 183 GQVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKK 242 Query: 241 SGELNGIVKKWLNVPLPEKIATTYQ 265 SGELNGIV+KWLNVPLP K+A T Q Sbjct: 243 SGELNGIVQKWLNVPLPAKMAATLQ 267 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 273 bits (698), Expect = 9e-75, Method: Compositional matrix adjust. Identities = 134/257 (52%), Positives = 175/257 (68%) Query: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 M K + G M + A AD L DIQK G +++ VP DF P+GSV +DL+ QGLD Sbjct: 1 MKLTKLLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 Query: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 IDVA L+AK +GVK EL+PV ++R+ +L T K+DL+IS++GKNAEREKVIDFS YAP+ Sbjct: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 Query: 121 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS 180 N VFG A + V ADLA +T+ V R + EDL LT VP S +KRYEDNN I++++S Sbjct: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 Query: 181 GQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 GQVQLV TG+ VA A+ + P KP K++I S C++G+NKGE L KV+ L SKK Sbjct: 181 GQVQLVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKK 240 Query: 241 SGELNGIVKKWLNVPLP 257 G L+ I +KWL +PLP Sbjct: 241 DGSLSAISQKWLGMPLP 257 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 150 bits (378), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 98/261 (37%), Positives = 151/261 (57%), Gaps = 7/261 (2%) Query: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 ++F + A A LGL A A AD LADI+ V + + P+G + L+ QG D Sbjct: 5 LSFTRKAAAVVLGL-ACFAQAAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSD 63 Query: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 ++ ARL+AK +GV+ E+V V +R+ FL T K D++IS+ ER+KV+ F+Q PY Sbjct: 64 VETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQ---PY 120 Query: 121 NNSVFGVAAIK---VAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAA 177 S F VAA K + DL + V V R +D +LT PK T I R++D+ + AA Sbjct: 121 GASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA 180 Query: 178 YVSGQVQLVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTA 237 +SGQV + T + +A A+A++ P+ K+ I +G+ KGEPAL +NE ++A Sbjct: 181 IISGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISA 240 Query: 238 SKKSGELNGIVKKWLNVPLPE 258 + K+G+L GI ++W+ P+P+ Sbjct: 241 NLKNGKLPGIYQQWVGSPMPD 261 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 138 bits (347), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 81/237 (34%), Positives = 125/237 (52%) Query: 24 ADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVARLVAKGMGVKAELVPVPIS 83 AD L I A +++ + PY L+L G D++ A+ +AK G++ E+VP ++ Sbjct: 28 ADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTLT 87 Query: 84 SRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSVFGVAAIKVAGPADLANQTV 143 +R+ +LQT+K D++IS ER KVIDFS YAP V ++K+ PADLA + + Sbjct: 88 NRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKKI 147 Query: 144 GVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVSGQVQLVGTGDFVAYALAEKTPAN 203 R T D LT P S I R++D+ + A VSGQ + T + + +K P+ Sbjct: 148 IATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPSR 207 Query: 204 KPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGELNGIVKKWLNVPLPEKI 260 K + + VG+ KGEP L K++ + + +GELN I KK+ LP +I Sbjct: 208 DIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELPPEI 264 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 0.132 0.367 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: 794,023 Number of extensions: 32897 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 132 Number of HSP's successfully gapped: 15 Length of query: 265 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 181 Effective length of database: 1,222,130 Effective search space: 221205530 Effective search space used: 221205530 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)