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= 0001.0218.p (269 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/sign... 461 e-131 gi|300313886|ref|YP_003777978.1| amino acid ABC transporter peri... 236 1e-63 gi|300313169|ref|YP_003777261.1| amino acid transport periplasmi... 217 7e-58 gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/sign... 185 3e-48 gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/sign... 172 2e-44 >gi|300309582|ref|YP_003773674.1| amino acid ABC transporter/signal transduction system periplasmic binding protein [Herbaspirillum seropedicae SmR1] Length = 269 Score = 461 bits (1185), Expect = e-131, Method: Compositional matrix adjust. Identities = 240/269 (89%), Positives = 251/269 (93%) Query: 1 MPIPSSPRRRLRGALLGLLLLGASTAQADQLDTIMAAKKLRVAIDLAVPPYSMKDDKLKL 60 M PSSP RR++ ALLGLLLLGA AQADQLDTI+AAKKLRVAIDLAVPPYSMKDDKL+L Sbjct: 1 MHSPSSPARRVQMALLGLLLLGAGAAQADQLDTILAAKKLRVAIDLAVPPYSMKDDKLRL 60 Query: 61 IGSDVETAQLMAKDFGLELEVVPTTLTNRVPFLQTNKADVVISAFSITAERAKVIDFSVP 120 IGSDVETAQ MAKDFGLELEVVPTTLTNRVP+LQTNKAD+VISAFSIT ERAKVIDFSVP Sbjct: 61 IGSDVETAQRMAKDFGLELEVVPTTLTNRVPYLQTNKADIVISAFSITPERAKVIDFSVP 120 Query: 121 YAPILVVVGAPRSMKITGPADLAGKKVIATRGTTNDQELTKIAPPSTTITRFDDDATSMT 180 YAPILVVVGAPRSMKIT PADLAGKK+IATRGTTNDQELTKIAP S TITRFDDDATSMT Sbjct: 121 YAPILVVVGAPRSMKITSPADLAGKKIIATRGTTNDQELTKIAPSSATITRFDDDATSMT 180 Query: 181 AMVSGQADIWVTSPMLLKVVNEKNPMRDIENKLTLKANLLAVGLRKGEPRLKEKIDGWIR 240 AMVSGQADIW TSPMLLKVVN+KNP RDIE+KLTLKANLLAVGLRKGEPRLKEKIDGWIR Sbjct: 181 AMVSGQADIWATSPMLLKVVNQKNPSRDIESKLTLKANLLAVGLRKGEPRLKEKIDGWIR 240 Query: 241 AKLGNGQLNAIYKKYHHAELPPEILNPAS 269 L NG+LN IYKKYH AELPPEIL+PAS Sbjct: 241 TNLSNGELNTIYKKYHEAELPPEILHPAS 269 >gi|300313886|ref|YP_003777978.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 236 bits (602), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 120/251 (47%), Positives = 169/251 (67%), Gaps = 1/251 (0%) Query: 18 LLLLGASTAQADQLDTIMAAKKLRVAIDLAVPPYSMKDDKLKLIGSDVETAQLMAKDFGL 77 +L L A A ADQLD I A K+R+A + P + D+KL+L GSDVE A+L+A+D G+ Sbjct: 18 VLGLTAHAALADQLDDIKKAGKIRIATTSSTPLFGYSDEKLQLAGSDVEAARLLAQDLGV 77 Query: 78 ELEVVPTTLTNRVPFLQTNKADVVISAFSITAERAKVIDFSVPYAPILVVVGAPRSMKIT 137 +L+++P RVP LQ N+AD+V+ + SIT ER KVIDFS PYA I +++GAP+SM I Sbjct: 78 QLDLIPVANAARVPTLQANRADIVVGSLSITPERLKVIDFSTPYAVISLIIGAPKSMVIK 137 Query: 138 GPADLAGKKVIATRGTTNDQELTKIAPPSTTITRFDDDATSMTAMVSGQADIWVTSPMLL 197 ADL GK++ TR T ND LT I R++DDAT +T+MV+GQ D++ ++P L Sbjct: 138 DYADLNGKRIGVTRATPND-TLTTQNAKGAEIMRYEDDATLITSMVTGQVDVFSSTPSNL 196 Query: 198 KVVNEKNPMRDIENKLTLKANLLAVGLRKGEPRLKEKIDGWIRAKLGNGQLNAIYKKYHH 257 + + +K P +++E K KA L + + K +PRLKE IDGW++ + NG+LNAIYKKYH Sbjct: 197 QEMQKKAPGKNLEMKFEQKAFDLGIAINKNQPRLKEWIDGWVKTNMKNGKLNAIYKKYHG 256 Query: 258 AELPPEILNPA 268 +LP + NPA Sbjct: 257 RDLPAAVQNPA 267 >gi|300313169|ref|YP_003777261.1| amino acid transport periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 268 Score = 217 bits (553), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 117/253 (46%), Positives = 155/253 (61%), Gaps = 1/253 (0%) Query: 9 RRLRGALLGLLLLGASTAQADQLDTIMAAKKLRVAIDLAVPPYSMKDDKLKLIGSDVETA 68 R+ +LGL + D I A KK+ VAIDL PP+ M + KL+ GSDVETA Sbjct: 9 RKAAAVVLGLACFAQAAHADALAD-IKARKKVLVAIDLGAPPFGMTNAKLEPQGSDVETA 67 Query: 69 QLMAKDFGLELEVVPTTLTNRVPFLQTNKADVVISAFSITAERAKVIDFSVPYAPILVVV 128 +L+AKD G+ELE+V T NR+PFL T KAD+VIS+FSIT ER KV+ F+ PY VV Sbjct: 68 RLLAKDLGVELEIVQVTGPNRIPFLMTGKADMVISSFSITPERQKVVAFTQPYGASQFVV 127 Query: 129 GAPRSMKITGPADLAGKKVIATRGTTNDQELTKIAPPSTTITRFDDDATSMTAMVSGQAD 188 AP+ I DL GK+V RG D LT IAP T I RFDDDAT A++SGQ D Sbjct: 128 AAPKGENIKSLNDLVGKRVAVVRGNMQDSLLTPIAPKGTNIVRFDDDATVTAAIISGQVD 187 Query: 189 IWVTSPMLLKVVNEKNPMRDIENKLTLKANLLAVGLRKGEPRLKEKIDGWIRAKLGNGQL 248 T L + ++NP +++E K +K A+GLRKGEP L++ ++ WI A L NG+L Sbjct: 188 ALCTPNSLASAIAKQNPSKNLETKFAIKDIPYAIGLRKGEPALEKWLNEWISANLKNGKL 247 Query: 249 NAIYKKYHHAELP 261 IY+++ + +P Sbjct: 248 PGIYQQWVGSPMP 260 >gi|300313535|ref|YP_003777627.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 185 bits (470), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 97/253 (38%), Positives = 149/253 (58%) Query: 9 RRLRGALLGLLLLGASTAQADQLDTIMAAKKLRVAIDLAVPPYSMKDDKLKLIGSDVETA 68 + L G + G ++ AS A+AD LD I LRVA+ PP+ D LK G D++ A Sbjct: 5 KLLLGLMAGAMMFSASVARADALDDIQKHGTLRVAVPADFPPFGSVDADLKPQGLDIDVA 64 Query: 69 QLMAKDFGLELEVVPTTLTNRVPFLQTNKADVVISAFSITAERAKVIDFSVPYAPILVVV 128 L+AK G+++E++P + NR+P+L T K D+VIS+ AER KVIDFS YAP V Sbjct: 65 TLIAKKLGVKVELIPVSSANRIPYLTTKKVDLVISSMGKNAEREKVIDFSAAYAPFFNGV 124 Query: 129 GAPRSMKITGPADLAGKKVIATRGTTNDQELTKIAPPSTTITRFDDDATSMTAMVSGQAD 188 P + + ADLAGK + TRG+ D ELTKI P S T+ R++D+ +++++ +SGQ Sbjct: 125 FGPADLSVKSAADLAGKTIAVTRGSVEDLELTKIVPASATVKRYEDNNSTISSFLSGQVQ 184 Query: 189 IWVTSPMLLKVVNEKNPMRDIENKLTLKANLLAVGLRKGEPRLKEKIDGWIRAKLGNGQL 248 + T ++ + +NP + E K +K + +GL KGE +L++K+D + +G L Sbjct: 185 LVATGNVVAAAIIARNPPKKPETKFLIKDSPCFIGLNKGEKKLQDKVDAILAESKKDGSL 244 Query: 249 NAIYKKYHHAELP 261 +AI +K+ LP Sbjct: 245 SAISQKWLGMPLP 257 >gi|300311590|ref|YP_003775682.1| amino acid ABC transporter/signal transduction system periplasmic protein/domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 172 bits (437), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 99/259 (38%), Positives = 148/259 (57%) Query: 6 SPRRRLRGALLGLLLLGASTAQADQLDTIMAAKKLRVAIDLAVPPYSMKDDKLKLIGSDV 65 SPR+ + +LGL + A+AD L I +R+ + P+ + L+L G D+ Sbjct: 4 SPRKTMLAVVLGLAAMQGGLARADALADIQKNGVVRIGVPQDFAPFGSVNTDLQLQGLDI 63 Query: 66 ETAQLMAKDFGLELEVVPTTLTNRVPFLQTNKADVVISAFSITAERAKVIDFSVPYAPIL 125 + A+L+A+ G++L++VP NR+ +LQT+KAD+VIS AER KVIDFS PYAP Sbjct: 64 DVARLIAQKMGVKLQLVPVASANRIAYLQTHKADLVISTLGRNAEREKVIDFSQPYAPYN 123 Query: 126 VVVGAPRSMKITGPADLAGKKVIATRGTTNDQELTKIAPPSTTITRFDDDATSMTAMVSG 185 V S+K++GPADLA K V RGT D +LT AP S TI R++D+ ++A VSG Sbjct: 124 NSVFGVASVKVSGPADLADKTVGVARGTFQDLQLTDTAPKSATIKRYEDNNAMISAYVSG 183 Query: 186 QADIWVTSPMLLKVVNEKNPMRDIENKLTLKANLLAVGLRKGEPRLKEKIDGWIRAKLGN 245 Q + T + + EK P K ++ + VGL KGEP L K++ + A + Sbjct: 184 QVQLVGTGDFVAYALAEKAPNNKPVLKYIIQESACNVGLNKGEPALLAKVNEALTAAKKS 243 Query: 246 GQLNAIYKKYHHAELPPEI 264 G+LN I +K+ + LP ++ Sbjct: 244 GELNGIVQKWLNVPLPAKM 262 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 0.317 0.133 0.373 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: 720,390 Number of extensions: 26093 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 98 Number of HSP's successfully gapped: 16 Length of query: 269 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 185 Effective length of database: 1,222,130 Effective search space: 226094050 Effective search space used: 226094050 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: 130 (54.7 bits)