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= 0001.1451.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... 508 e-145 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 412 e-116 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 276 1e-75 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 148 4e-37 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 141 5e-35 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 508 bits (1307), Expect = e-145, Method: Compositional matrix adjust. Identities = 250/265 (94%), Positives = 256/265 (96%) Query: 1 MKFVKTAIVASLGLMAVLAASAHADNLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 M F+KTAI ASLGLMAV A AD LADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD Sbjct: 1 MNFIKTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 Query: 61 IDVAKLVAKGLGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 IDVA+LVAKG+GVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY Sbjct: 61 IDVARLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 Query: 121 NNSVFGVAAIKVSGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLISAYVS 180 NNSVFGVAAIKV+GPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLI+AYVS Sbjct: 121 NNSVFGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVS 180 Query: 181 GQVQIVGTGDFVAYALAEKTPNNKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 GQVQ+VGTGDFVAYALAEKTP NKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 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 = 412 bits (1060), Expect = e-116, Method: Compositional matrix adjust. Identities = 198/261 (75%), Positives = 228/261 (87%) Query: 5 KTAIVASLGLMAVLAASAHADNLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVA 64 KT + LGL A+ A AD LADIQK GVV+IGVPQDFAP+GSV +DLQLQGLDIDVA Sbjct: 7 KTMLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVA 66 Query: 65 KLVAKGLGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSV 124 +L+A+ +GVK +LVPV ++R+A+LQTHK DL+ISTLG+NAEREKVIDFSQ YAPYNNSV Sbjct: 67 RLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSV 126 Query: 125 FGVAAIKVSGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLISAYVSGQVQ 184 FGVA++KVSGPADLA++TVGVAR TF+DL LTD+ PKS IKRYEDNN +ISAYVSGQVQ Sbjct: 127 FGVASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQ 186 Query: 185 IVGTGDFVAYALAEKTPNNKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGEL 244 +VGTGDFVAYALAEK PNNKP+LKYII S C VG+NKGEPAL+AKVNEALTA+KKSGEL Sbjct: 187 LVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGEL 246 Query: 245 NGIVKKWLNVPLPEKIATTYQ 265 NGIV+KWLNVPLP K+A T Q Sbjct: 247 NGIVQKWLNVPLPAKMAATLQ 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 = 276 bits (707), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 137/257 (53%), Positives = 177/257 (68%) Query: 1 MKFVKTAIVASLGLMAVLAASAHADNLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 MK K + G M A+ A AD L DIQK G +++ VP DF P+GSV +DL+ QGLD Sbjct: 1 MKLTKLLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLD 60 Query: 61 IDVAKLVAKGLGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 IDVA L+AK LGVK EL+PV ++R+ +L T K+DL+IS++GKNAEREKVIDFS YAP+ Sbjct: 61 IDVATLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPF 120 Query: 121 NNSVFGVAAIKVSGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLISAYVS 180 N VFG A + V ADLA +T+ V R + EDL LT VP S +KRYEDNN IS+++S Sbjct: 121 FNGVFGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLS 180 Query: 181 GQVQIVGTGDFVAYALAEKTPNNKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKK 240 GQVQ+V 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 = 148 bits (374), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 98/261 (37%), Positives = 152/261 (58%), Gaps = 7/261 (2%) Query: 1 MKFVKTAIVASLGLMAVLAASAHADNLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLD 60 + F + A LGL A A +AHAD LADI+ V + + P+G + L+ QG D Sbjct: 5 LSFTRKAAAVVLGL-ACFAQAAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSD 63 Query: 61 IDVAKLVAKGLGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPY 120 ++ A+L+AK LGV+ E+V V +R+ FL T K D++IS+ ER+KV+ F+Q PY Sbjct: 64 VETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQ---PY 120 Query: 121 NNSVFGVAAIK---VSGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLISA 177 S F VAA K + DL + V V R +D +LT PK T I R++D+ + +A Sbjct: 121 GASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAA 180 Query: 178 YVSGQVQIVGTGDFVAYALAEKTPNNKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTA 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 = 141 bits (356), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 82/238 (34%), Positives = 127/238 (53%) Query: 23 HADNLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVAKLVAKGLGVKAELVPVPI 82 AD L I A +++ + PY L+L G D++ A+ +AK G++ E+VP + Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 83 SSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSVFGVAAIKVSGPADLANQT 142 ++R+ +LQT+K D++IS ER KVIDFS YAP V ++K++ PADLA + Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 143 VGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLISAYVSGQVQIVGTGDFVAYALAEKTPN 202 + R T D LT P S I R++D+ ++A VSGQ I T + + +K P+ Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 203 NKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGELNGIVKKWLNVPLPEKI 260 K + + VG+ KGEP L K++ + + +GELN I KK+ LP +I Sbjct: 207 RDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELPPEI 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 0.315 0.132 0.363 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: 773,103 Number of extensions: 31259 Number of successful extensions: 124 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 16 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)