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= 0001.2516.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|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 484 e-138 gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 402 e-113 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 304 6e-84 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 157 1e-39 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 153 1e-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 = 484 bits (1247), Expect = e-138, Method: Compositional matrix adjust. Identities = 237/265 (89%), Positives = 251/265 (94%) Query: 1 MTPKQSLLAFTLTLSSLAAGAAHADALADIQKAGVVRIGVPQDFAPFGSVNTELQLQGLD 60 M+P++++LA L L+++ G A ADALADIQK GVVRIGVPQDFAPFGSVNT+LQLQGLD Sbjct: 3 MSPRKTMLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLD 62 Query: 61 IDVAKLIAQKMGVKAQLVPVASANRIAYLQTHKTDLVISTLGKNAEREKVIDFSQPYAPY 120 IDVA+LIAQKMGVK QLVPVASANRIAYLQTHK DLVISTLG+NAEREKVIDFSQPYAPY Sbjct: 63 IDVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPY 122 Query: 121 NNSVFGVASIKVSGPADLAGKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVS 180 NNSVFGVAS+KVSGPADLA KTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVS Sbjct: 123 NNSVFGVASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVS 182 Query: 181 GQVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGETALLAKVNDALTEAKK 240 GQVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGE ALLAKVN+ALT AKK Sbjct: 183 GQVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKK 242 Query: 241 SGELNAIVQKWLNVPLPAKMAATVQ 265 SGELN IVQKWLNVPLPAKMAAT+Q Sbjct: 243 SGELNGIVQKWLNVPLPAKMAATLQ 267 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 402 bits (1032), Expect = e-113, Method: Compositional matrix adjust. Identities = 194/261 (74%), Positives = 227/261 (86%) Query: 5 QSLLAFTLTLSSLAAGAAHADALADIQKAGVVRIGVPQDFAPFGSVNTELQLQGLDIDVA 64 ++ +A +L L ++A A AD LADIQKAGVV+IGVPQDFAP+GSV ++LQLQGLDIDVA Sbjct: 5 KTAIAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVA 64 Query: 65 KLIAQKMGVKAQLVPVASANRIAYLQTHKTDLVISTLGKNAEREKVIDFSQPYAPYNNSV 124 +L+A+ MGVKA+LVPV ++R+A+LQTHK DL+ISTLGKNAEREKVIDFSQ YAPYNNSV Sbjct: 65 RLVAKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSV 124 Query: 125 FGVASIKVSGPADLAGKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQ 184 FGVA+IKV+GPADLA +TVGVAR TF+DL LTD+ PKS IKRYEDNN +I+AYVSGQVQ Sbjct: 125 FGVAAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVSGQVQ 184 Query: 185 LVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGETALLAKVNDALTEAKKSGEL 244 LVGTGDFVAYALAEK P NKP+LKYII S C VG+NKGE AL+AKVN+ALT +KKSGEL Sbjct: 185 LVGTGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGEL 244 Query: 245 NAIVQKWLNVPLPAKMAATVQ 265 N IV+KWLNVPLP K+A T Q Sbjct: 245 NGIVKKWLNVPLPEKIATTYQ 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 = 304 bits (778), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 147/244 (60%), Positives = 184/244 (75%) Query: 17 LAAGAAHADALADIQKAGVVRIGVPQDFAPFGSVNTELQLQGLDIDVAKLIAQKMGVKAQ 76 +A A ADAL DIQK G +R+ VP DF PFGSV+ +L+ QGLDIDVA LIA+K+GVK + Sbjct: 17 FSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATLIAKKLGVKVE 76 Query: 77 LVPVASANRIAYLQTHKTDLVISTLGKNAEREKVIDFSQPYAPYNNSVFGVASIKVSGPA 136 L+PV+SANRI YL T K DLVIS++GKNAEREKVIDFS YAP+ N VFG A + V A Sbjct: 77 LIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFGPADLSVKSAA 136 Query: 137 DLAGKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYAL 196 DLAGKT+ V RG+ +DL+LT P SAT+KRYEDNN+ IS+++SGQVQLV TG+ VA A+ Sbjct: 137 DLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLVATGNVVAAAI 196 Query: 197 AEKAPNNKPVLKYIIQESACNVGLNKGETALLAKVNDALTEAKKSGELNAIVQKWLNVPL 256 + P KP K++I++S C +GLNKGE L KV+ L E+KK G L+AI QKWL +PL Sbjct: 197 IARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSAISQKWLGMPL 256 Query: 257 PAKM 260 PA + Sbjct: 257 PAGL 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 (396), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 88/238 (36%), Positives = 133/238 (55%) Query: 23 HADALADIQKAGVVRIGVPQDFAPFGSVNTELQLQGLDIDVAKLIAQKMGVKAQLVPVAS 82 AD L I A +R+ + P+ + +L+L G D++ A+ +A+ G++ ++VP Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 83 ANRIAYLQTHKTDLVISTLGKNAEREKVIDFSQPYAPYNNSVFGVASIKVSGPADLAGKT 142 NR+ YLQT+K D+VIS ER KVIDFS PYAP V S+K++ PADLAGK Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 143 VGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAPN 202 + RGT D +LT AP SATI R++D+ ++A VSGQ + T + + +K P+ Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 203 NKPVLKYIIQESACNVGLNKGETALLAKVNDALTEAKKSGELNAIVQKWLNVPLPAKM 260 K ++ + VGL KGE L K++ + +GELN I +K+ LP ++ Sbjct: 207 RDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIRTNLSNGELNTIYKKYHEAELPPEI 264 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 153 bits (387), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 99/262 (37%), Positives = 152/262 (58%), Gaps = 12/262 (4%) Query: 5 QSLLAFTLTLSSLAAGAA------HADALADIQKAGVVRIGVPQDFAPFGSVNTELQLQG 58 + LL+FT +++ G A HADALADI+ V + + PFG N +L+ QG Sbjct: 2 KKLLSFTRKAAAVVLGLACFAQAAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQG 61 Query: 59 LDIDVAKLIAQKMGVKAQLVPVASANRIAYLQTHKTDLVISTLGKNAEREKVIDFSQPYA 118 D++ A+L+A+ +GV+ ++V V NRI +L T K D+VIS+ ER+KV+ F+QPY Sbjct: 62 SDVETARLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYG 121 Query: 119 PYNNSVFGVASIK---VSGPADLAGKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMI 175 S F VA+ K + DL GK V V RG QD LT APK I R++D+ + Sbjct: 122 ---ASQFVVAAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVT 178 Query: 176 SAYVSGQVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGETALLAKVNDAL 235 +A +SGQV + T + +A A+A++ P+ K+ I++ +GL KGE AL +N+ + Sbjct: 179 AAIISGQVDALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWI 238 Query: 236 TEAKKSGELNAIVQKWLNVPLP 257 + K+G+L I Q+W+ P+P Sbjct: 239 SANLKNGKLPGIYQQWVGSPMP 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 0.314 0.129 0.353 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: 697,567 Number of extensions: 26583 Number of successful extensions: 100 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 88 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 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 129 (54.3 bits)