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= 0011.0297.p (259 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... 520 e-149 gi|300310886|ref|YP_003774978.1| amino acid ABC transporter peri... 407 e-115 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 301 3e-83 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 166 1e-42 gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 157 9e-40 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 520 bits (1340), Expect = e-149, Method: Compositional matrix adjust. Identities = 259/259 (100%), Positives = 259/259 (100%) Query: 1 MLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARL 60 MLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARL Sbjct: 9 MLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARL 68 Query: 61 IAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFG 120 IAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFG Sbjct: 69 IAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFG 128 Query: 121 VASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLV 180 VASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLV Sbjct: 129 VASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLV 188 Query: 181 GTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNG 240 GTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNG Sbjct: 189 GTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNG 248 Query: 241 IVQKWLNVPLPAKMAATLQ 259 IVQKWLNVPLPAKMAATLQ Sbjct: 249 IVQKWLNVPLPAKMAATLQ 267 >gi|300310886|ref|YP_003774978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 407 bits (1046), Expect = e-115, Method: Compositional matrix adjust. Identities = 197/258 (76%), Positives = 226/258 (87%) Query: 2 LAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARLI 61 +A LGL A+ A AD LADIQK GVV+IGVPQDFAP+GSV +DLQLQGLDIDVARL+ Sbjct: 8 IAASLGLMAVAVHPAMADTLADIQKAGVVKIGVPQDFAPYGSVTSDLQLQGLDIDVARLV 67 Query: 62 AQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGV 121 A+ MGVK +LVPV ++R+A+LQTHK DL+ISTLG+NAEREKVIDFSQ YAPYNNSVFGV Sbjct: 68 AKGMGVKAELVPVPISSRMAFLQTHKIDLIISTLGKNAEREKVIDFSQGYAPYNNSVFGV 127 Query: 122 ASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVG 181 A++KV+GPADLA++TVGVAR TF+DL LTD+ PKS IKRYEDNN +I+AYVSGQVQLVG Sbjct: 128 AAIKVAGPADLANQTVGVARSTFEDLMLTDSVPKSTVIKRYEDNNGLIAAYVSGQVQLVG 187 Query: 182 TGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNGI 241 TGDFVAYALAEK P NKP+LKYII S C VG+NKGEPAL+AKVNEALTA+KKSGELNGI Sbjct: 188 TGDFVAYALAEKTPANKPLLKYIINVSTCYVGMNKGEPALMAKVNEALTASKKSGELNGI 247 Query: 242 VQKWLNVPLPAKMAATLQ 259 V+KWLNVPLP K+A T Q Sbjct: 248 VKKWLNVPLPEKIATTYQ 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 = 301 bits (772), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 146/252 (57%), Positives = 187/252 (74%) Query: 1 MLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARL 60 +L ++ G +ARADAL DIQK+G +R+ VP DF PFGSV+ DL+ QGLDIDVA L Sbjct: 7 LLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVATL 66 Query: 61 IAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFG 120 IA+K+GVK++L+PV+SANRI YL T K DLVIS++G+NAEREKVIDFS YAP+ N VFG Sbjct: 67 IAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGVFG 126 Query: 121 VASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLV 180 A + V ADLA KT+ V RG+ +DL+LT P SAT+KRYEDNN+ IS+++SGQVQLV Sbjct: 127 PADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQLV 186 Query: 181 GTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNG 240 TG+ VA A+ + P KP K++I++S C +GLNKGE L KV+ L +KK G L+ Sbjct: 187 ATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSLSA 246 Query: 241 IVQKWLNVPLPA 252 I QKWL +PLPA Sbjct: 247 ISQKWLGMPLPA 258 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 166 bits (421), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 106/252 (42%), Positives = 151/252 (59%), Gaps = 7/252 (2%) Query: 3 AVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARLIA 62 AVVLGLA A ADALADI+ V + + PFG N L+ QG D++ ARL+A Sbjct: 13 AVVLGLACFAQ-AAHADALADIKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETARLLA 71 Query: 63 QKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVA 122 + +GV+L++V V NRI +L T KAD+VIS+ ER+KV+ F+QPY S F VA Sbjct: 72 KDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYG---ASQFVVA 128 Query: 123 SVK---VSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQL 179 + K + DL K V V RG QD LT APK I R++D+ + +A +SGQV Sbjct: 129 APKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVDA 188 Query: 180 VGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELN 239 + T + +A A+A++ P+ K+ I++ +GL KGEPAL +NE ++A K+G+L Sbjct: 189 LCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKLP 248 Query: 240 GIVQKWLNVPLP 251 GI Q+W+ P+P Sbjct: 249 GIYQQWVGSPMP 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 (397), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 89/238 (37%), Positives = 134/238 (56%) Query: 17 RADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDIDVARLIAQKMGVKLQLVPVAS 76 +AD L I +R+ + P+ + L+L G D++ A+ +A+ G++L++VP Sbjct: 27 QADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRLIGSDVETAQRMAKDFGLELEVVPTTL 86 Query: 77 ANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYNNSVFGVASVKVSGPADLADKT 136 NR+ YLQT+KAD+VIS ER KVIDFS PYAP V S+K++ PADLA K Sbjct: 87 TNRVPYLQTNKADIVISAFSITPERAKVIDFSVPYAPILVVVGAPRSMKITSPADLAGKK 146 Query: 137 VGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSGQVQLVGTGDFVAYALAEKAPN 196 + RGT D +LT AP SATI R++D+ ++A VSGQ + T + + +K P+ Sbjct: 147 IIATRGTTNDQELTKIAPSSATITRFDDDATSMTAMVSGQADIWATSPMLLKVVNQKNPS 206 Query: 197 NKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKSGELNGIVQKWLNVPLPAKM 254 K ++ + VGL KGEP L K++ + +GELN I +K+ LP ++ 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 0.316 0.132 0.364 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: 773,163 Number of extensions: 31493 Number of successful extensions: 119 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 106 Number of HSP's successfully gapped: 17 Length of query: 259 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 176 Effective length of database: 1,226,865 Effective search space: 215928240 Effective search space used: 215928240 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)